diff --git a/CHANGELOG.md b/CHANGELOG.md index 1ce2b801..6c7aacc8 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -20,16 +20,18 @@ based on a provided sequence IDs or region coordinates file (PR #85). * `agat`: - - `agat_convert_sp_gff2gtf`: convert any GTF/GFF file into a proper GTF file (PR #76). - - `agat_convert_bed2gff`: convert bed file to gff format (PR #97). - `agat_sq_stat_basic`: provide basic statistics of a gtf/gff file (PR #110). + - `agat/agat_convert_sp_gff2gtf`: convert any GTF/GFF file into a proper GTF file (PR #76). + - `agat/agat_convert_bed2gff`: convert bed file to gff format (PR #97). + - `agat/agat_convert_embl2gff`: convert an EMBL file into GFF format (PR #99). + - `agat/agat_convert_sp_gff2tsv`: convert gtf/gff file into tabulated file (PR #102). + - `agat/agat_convert_sp_gxf2gxf`: fixes and/or standardizes any GTF/GFF file into full sorted GTF/GFF file (PR #103). * `bedtools`: - `bedtools/bedtools_intersect`: Allows one to screen for overlaps between two sets of genomic features (PR #94). - `bedtools/bedtools_sort`: Sorts a feature file (bed/gff/vcf) by chromosome and other criteria (PR #98). - - -* `agat/agat_convert_embl2gff`: convert an EMBL file into GFF format (PR #99). + - `bedtools/bedtools_bamtofastq`: Convert BAM alignments to FASTQ files (PR #101). + - `bedtools/bedtools_bedtobam`: Converts genomic feature records (bed/gff/vcf) to BAM format (PR #111). ## MINOR CHANGES diff --git a/src/agat/agat_convert_sp_gff2tsv/config.vsh.yaml b/src/agat/agat_convert_sp_gff2tsv/config.vsh.yaml new file mode 100644 index 00000000..f1c78590 --- /dev/null +++ b/src/agat/agat_convert_sp_gff2tsv/config.vsh.yaml @@ -0,0 +1,70 @@ +name: agat_convert_sp_gff2tsv +namespace: agat +description: | + The script aims to convert gtf/gff file into tabulated file. Attribute's + tags from the 9th column become column titles. +keywords: [gene annotations, GFF conversion] +links: + homepage: https://github.com/NBISweden/AGAT + documentation: https://agat.readthedocs.io/en/latest/tools/agat_convert_sp_gff2tsv.html + issue_tracker: https://github.com/NBISweden/AGAT/issues + repository: https://github.com/NBISweden/AGAT +references: + doi: 10.5281/zenodo.3552717 +license: GPL-3.0 +authors: + - __merge__: /src/_authors/leila_paquay.yaml + roles: [ author, maintainer ] + +argument_groups: + - name: Inputs + arguments: + - name: --gff + alternatives: [-f] + description: Input GTF/GFF file. + type: file + required: true + direction: input + example: input.gff + - name: Outputs + arguments: + - name: --output + alternatives: [-o, --out, --outfile] + description: Output GFF file. If no output file is specified, the output will be written to STDOUT. + type: file + direction: output + required: true + example: output.gff + - name: Arguments + arguments: + - name: --config + alternatives: [-c] + description: | + String - Input agat config file. By default AGAT takes as input + agat_config.yaml file from the working directory if any, + otherwise it takes the orignal agat_config.yaml shipped with + AGAT. To get the agat_config.yaml locally type: "agat config + --expose". The --config option gives you the possibility to use + your own AGAT config file (located elsewhere or named + differently). + type: file + required: false + example: custom_agat_config.yaml +resources: + - type: bash_script + path: script.sh +test_resources: + - type: bash_script + path: test.sh + - type: file + path: test_data +engines: + - type: docker + image: quay.io/biocontainers/agat:1.4.0--pl5321hdfd78af_0 + setup: + - type: docker + run: | + agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.txt +runners: + - type: executable + - type: nextflow \ No newline at end of file diff --git a/src/agat/agat_convert_sp_gff2tsv/help.txt b/src/agat/agat_convert_sp_gff2tsv/help.txt new file mode 100644 index 00000000..afbf85f8 --- /dev/null +++ b/src/agat/agat_convert_sp_gff2tsv/help.txt @@ -0,0 +1,63 @@ +```sh +agat_convert_sp_gff2tsv.pl --help +``` + + ------------------------------------------------------------------------------ +| Another GFF Analysis Toolkit (AGAT) - Version: v1.4.0 | +| https://github.com/NBISweden/AGAT | +| National Bioinformatics Infrastructure Sweden (NBIS) - www.nbis.se | + ------------------------------------------------------------------------------ + + +Name: + agat_convert_sp_gff2tsv.pl + +Description: + The script aims to convert gtf/gff file into tabulated file. Attribute's + tags from the 9th column become column titles. + +Usage: + agat_convert_sp_gff2tsv.pl -gff file.gff [ -o outfile ] + agat_convert_sp_gff2tsv.pl --help + +Options: + --gff or -f + Input GTF/GFF file. + + -o , --output , --out or --outfile + Output GFF file. If no output file is specified, the output will + be written to STDOUT. + + -c or --config + String - Input agat config file. By default AGAT takes as input + agat_config.yaml file from the working directory if any, + otherwise it takes the orignal agat_config.yaml shipped with + AGAT. To get the agat_config.yaml locally type: "agat config + --expose". The --config option gives you the possibility to use + your own AGAT config file (located elsewhere or named + differently). + + -h or --help + Display this helpful text. + +Feedback: + Did you find a bug?: + Do not hesitate to report bugs to help us keep track of the bugs and + their resolution. Please use the GitHub issue tracking system available + at this address: + + https://github.com/NBISweden/AGAT/issues + + Ensure that the bug was not already reported by searching under Issues. + If you're unable to find an (open) issue addressing the problem, open a new one. + Try as much as possible to include in the issue when relevant: + - a clear description, + - as much relevant information as possible, + - the command used, + - a data sample, + - an explanation of the expected behaviour that is not occurring. + + Do you want to contribute?: + You are very welcome, visit this address for the Contributing + guidelines: + https://github.com/NBISweden/AGAT/blob/master/CONTRIBUTING.md \ No newline at end of file diff --git a/src/agat/agat_convert_sp_gff2tsv/script.sh b/src/agat/agat_convert_sp_gff2tsv/script.sh new file mode 100644 index 00000000..6393303c --- /dev/null +++ b/src/agat/agat_convert_sp_gff2tsv/script.sh @@ -0,0 +1,9 @@ +#!/bin/bash + +## VIASH START +## VIASH END + +agat_convert_sp_gff2tsv.pl \ + -f "$par_gff" \ + -o "$par_output" \ + ${par_config:+--config "${par_config}"} diff --git a/src/agat/agat_convert_sp_gff2tsv/test.sh b/src/agat/agat_convert_sp_gff2tsv/test.sh new file mode 100644 index 00000000..fabe46b9 --- /dev/null +++ b/src/agat/agat_convert_sp_gff2tsv/test.sh @@ -0,0 +1,27 @@ +#!/bin/bash + +## VIASH START +## VIASH END + +test_dir="${meta_resources_dir}/test_data" +out_dir="${meta_resources_dir}/out_data" + +echo "> Run $meta_name with test data" +"$meta_executable" \ + --gff "$test_dir/1.gff" \ + --output "$out_dir/output.gff" + +echo ">> Checking output" +[ ! -f "$out_dir/output.gff" ] && echo "Output file output.gff does not exist" && exit 1 + +echo ">> Check if output is empty" +[ ! -s "$out_dir/output.gff" ] && echo "Output file output.gff is empty" && exit 1 + +echo ">> Check if output matches expected output" +diff "$out_dir/output.gff" "$test_dir/agat_convert_sp_gff2tsv_1.tsv" +if [ $? -ne 0 ]; then + echo "Output file output.gff does not match expected output" + exit 1 +fi + +echo "> Test successful" \ No newline at end of file diff --git a/src/agat/agat_convert_sp_gff2tsv/test_data/1.gff b/src/agat/agat_convert_sp_gff2tsv/test_data/1.gff new file mode 100644 index 00000000..40a06c78 --- /dev/null +++ b/src/agat/agat_convert_sp_gff2tsv/test_data/1.gff @@ -0,0 +1,942 @@ +##gff-version 3 +##sequence-region 1 1 43270923 +#!genome-build RAP-DB IRGSP-1.0 +#!genome-version IRGSP-1.0 +#!genome-date 2015-10 +#!genome-build-accession GCA_001433935.1 +1 RAP-DB chromosome 1 43270923 . . . ID=chromosome:1;Alias=Chr1,AP014957.1,NC_029256.1 +### +1 irgsp repeat_region 2000 2100 . + . ID=fakeRepeat1 +### +1 irgsp gene 2983 10815 . + . ID=gene:Os01g0100100;biotype=protein_coding;description=RabGAP/TBC domain containing protein. (Os01t0100100-01);gene_id=Os01g0100100;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 2983 10815 . + . ID=transcript:Os01t0100100-01;Parent=gene:Os01g0100100;biotype=protein_coding;transcript_id=Os01t0100100-01 +1 irgsp exon 2983 3268 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0100100-01.exon1;rank=1 +1 irgsp five_prime_UTR 2983 3268 . + . Parent=transcript:Os01t0100100-01 +1 irgsp five_prime_UTR 3354 3448 . + . Parent=transcript:Os01t0100100-01 +1 irgsp exon 3354 3616 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0100100-01.exon2;rank=2 +1 irgsp CDS 3449 3616 . + 0 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 4357 4455 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100100-01.exon3;rank=3 +1 irgsp CDS 4357 4455 . + 0 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 5457 5560 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon4;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0100100-01.exon4;rank=4 +1 irgsp CDS 5457 5560 . + 0 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 7136 7944 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon5;constitutive=1;ensembl_end_phase=1;ensembl_phase=2;exon_id=Os01t0100100-01.exon5;rank=5 +1 irgsp CDS 7136 7944 . + 1 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 8028 8150 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon6;constitutive=1;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0100100-01.exon6;rank=6 +1 irgsp CDS 8028 8150 . + 2 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 8232 8320 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0100100-01.exon7;rank=7 +1 irgsp CDS 8232 8320 . + 2 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 8408 8608 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon8;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100100-01.exon8;rank=8 +1 irgsp CDS 8408 8608 . + 0 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 9210 9615 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon9;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0100100-01.exon9;rank=9 +1 irgsp CDS 9210 9615 . + 0 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 10102 10187 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon10;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0100100-01.exon10;rank=10 +1 irgsp CDS 10102 10187 . + 2 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp CDS 10274 10297 . + 0 ID=CDS:Os01t0100100-01;Parent=transcript:Os01t0100100-01;protein_id=Os01t0100100-01 +1 irgsp exon 10274 10430 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon11;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0100100-01.exon11;rank=11 +1 irgsp three_prime_UTR 10298 10430 . + . Parent=transcript:Os01t0100100-01 +1 irgsp exon 10504 10815 . + . Parent=transcript:Os01t0100100-01;Name=Os01t0100100-01.exon12;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0100100-01.exon12;rank=12 +1 irgsp three_prime_UTR 10504 10815 . + . Parent=transcript:Os01t0100100-01 +### +1 irgsp gene 11218 12435 . + . ID=gene:Os01g0100200;biotype=protein_coding;description=Conserved hypothetical protein. (Os01t0100200-01);gene_id=Os01g0100200;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 11218 12435 . + . ID=transcript:Os01t0100200-01;Parent=gene:Os01g0100200;biotype=protein_coding;transcript_id=Os01t0100200-01 +1 irgsp five_prime_UTR 11218 11797 . + . Parent=transcript:Os01t0100200-01 +1 irgsp exon 11218 12060 . + . Parent=transcript:Os01t0100200-01;Name=Os01t0100200-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0100200-01.exon1;rank=1 +1 irgsp CDS 11798 12060 . + 0 ID=CDS:Os01t0100200-01;Parent=transcript:Os01t0100200-01;protein_id=Os01t0100200-01 +1 irgsp CDS 12152 12317 . + 1 ID=CDS:Os01t0100200-01;Parent=transcript:Os01t0100200-01;protein_id=Os01t0100200-01 +1 irgsp exon 12152 12435 . + . Parent=transcript:Os01t0100200-01;Name=Os01t0100200-01.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0100200-01.exon2;rank=2 +1 irgsp three_prime_UTR 12318 12435 . + . Parent=transcript:Os01t0100200-01 +### +1 irgsp gene 11372 12284 . - . ID=gene:Os01g0100300;biotype=protein_coding;description=Cytochrome P450 domain containing protein. (Os01t0100300-00);gene_id=Os01g0100300;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 11372 12284 . - . ID=transcript:Os01t0100300-00;Parent=gene:Os01g0100300;biotype=protein_coding;transcript_id=Os01t0100300-00 +1 irgsp exon 11372 12042 . - . Parent=transcript:Os01t0100300-00;Name=Os01t0100300-00.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0100300-00.exon2;rank=2 +1 irgsp CDS 11372 12042 . - 2 ID=CDS:Os01t0100300-00;Parent=transcript:Os01t0100300-00;protein_id=Os01t0100300-00 +1 irgsp exon 12146 12284 . - . Parent=transcript:Os01t0100300-00;Name=Os01t0100300-00.exon1;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0100300-00.exon1;rank=1 +1 irgsp CDS 12146 12284 . - 0 ID=CDS:Os01t0100300-00;Parent=transcript:Os01t0100300-00;protein_id=Os01t0100300-00 +### +1 irgsp gene 12721 15685 . + . ID=gene:Os01g0100400;biotype=protein_coding;description=Similar to Pectinesterase-like protein. (Os01t0100400-01);gene_id=Os01g0100400;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 12721 15685 . + . ID=transcript:Os01t0100400-01;Parent=gene:Os01g0100400;biotype=protein_coding;transcript_id=Os01t0100400-01 +1 irgsp five_prime_UTR 12721 12773 . + . Parent=transcript:Os01t0100400-01 +1 irgsp exon 12721 13813 . + . Parent=transcript:Os01t0100400-01;Name=Os01t0100400-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0100400-01.exon1;rank=1 +1 irgsp CDS 12774 13813 . + 0 ID=CDS:Os01t0100400-01;Parent=transcript:Os01t0100400-01;protein_id=Os01t0100400-01 +1 irgsp exon 13906 14271 . + . Parent=transcript:Os01t0100400-01;Name=Os01t0100400-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0100400-01.exon2;rank=2 +1 irgsp CDS 13906 14271 . + 1 ID=CDS:Os01t0100400-01;Parent=transcript:Os01t0100400-01;protein_id=Os01t0100400-01 +1 irgsp exon 14359 14437 . + . Parent=transcript:Os01t0100400-01;Name=Os01t0100400-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0100400-01.exon3;rank=3 +1 irgsp CDS 14359 14437 . + 1 ID=CDS:Os01t0100400-01;Parent=transcript:Os01t0100400-01;protein_id=Os01t0100400-01 +1 irgsp exon 14969 15171 . + . Parent=transcript:Os01t0100400-01;Name=Os01t0100400-01.exon4;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0100400-01.exon4;rank=4 +1 irgsp CDS 14969 15171 . + 0 ID=CDS:Os01t0100400-01;Parent=transcript:Os01t0100400-01;protein_id=Os01t0100400-01 +1 irgsp CDS 15266 15359 . + 1 ID=CDS:Os01t0100400-01;Parent=transcript:Os01t0100400-01;protein_id=Os01t0100400-01 +1 irgsp exon 15266 15685 . + . Parent=transcript:Os01t0100400-01;Name=Os01t0100400-01.exon5;constitutive=1;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0100400-01.exon5;rank=5 +1 irgsp three_prime_UTR 15360 15685 . + . Parent=transcript:Os01t0100400-01 +### +1 irgsp gene 12808 13978 . - . ID=gene:Os01g0100466;biotype=protein_coding;description=Hypothetical protein. (Os01t0100466-00);gene_id=Os01g0100466;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 12808 13978 . - . ID=transcript:Os01t0100466-00;Parent=gene:Os01g0100466;biotype=protein_coding;transcript_id=Os01t0100466-00 +1 irgsp three_prime_UTR 12808 12868 . - . Parent=transcript:Os01t0100466-00 +1 irgsp exon 12808 13782 . - . Parent=transcript:Os01t0100466-00;Name=Os01t0100466-00.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0100466-00.exon2;rank=2 +1 irgsp CDS 12869 13102 . - 0 ID=CDS:Os01t0100466-00;Parent=transcript:Os01t0100466-00;protein_id=Os01t0100466-00 +1 irgsp five_prime_UTR 13103 13782 . - . Parent=transcript:Os01t0100466-00 +1 irgsp exon 13880 13978 . - . Parent=transcript:Os01t0100466-00;Name=Os01t0100466-00.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0100466-00.exon1;rank=1 +1 irgsp five_prime_UTR 13880 13978 . - . Parent=transcript:Os01t0100466-00 +### +1 irgsp gene 16399 20144 . + . ID=gene:Os01g0100500;biotype=protein_coding;description=Immunoglobulin-like domain containing protein. (Os01t0100500-01);gene_id=Os01g0100500;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 16399 20144 . + . ID=transcript:Os01t0100500-01;Parent=gene:Os01g0100500;biotype=protein_coding;transcript_id=Os01t0100500-01 +1 irgsp five_prime_UTR 16399 16598 . + . Parent=transcript:Os01t0100500-01 +1 irgsp exon 16399 16976 . + . Parent=transcript:Os01t0100500-01;Name=Os01t0100500-01.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0100500-01.exon1;rank=1 +1 irgsp CDS 16599 16976 . + 0 ID=CDS:Os01t0100500-01;Parent=transcript:Os01t0100500-01;protein_id=Os01t0100500-01 +1 irgsp exon 17383 17474 . + . Parent=transcript:Os01t0100500-01;Name=Os01t0100500-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0100500-01.exon2;rank=2 +1 irgsp CDS 17383 17474 . + 0 ID=CDS:Os01t0100500-01;Parent=transcript:Os01t0100500-01;protein_id=Os01t0100500-01 +1 irgsp exon 17558 18258 . + . Parent=transcript:Os01t0100500-01;Name=Os01t0100500-01.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=2;exon_id=Os01t0100500-01.exon3;rank=3 +1 irgsp CDS 17558 18258 . + 1 ID=CDS:Os01t0100500-01;Parent=transcript:Os01t0100500-01;protein_id=Os01t0100500-01 +1 irgsp exon 18501 18571 . + . Parent=transcript:Os01t0100500-01;Name=Os01t0100500-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0100500-01.exon4;rank=4 +1 irgsp CDS 18501 18571 . + 2 ID=CDS:Os01t0100500-01;Parent=transcript:Os01t0100500-01;protein_id=Os01t0100500-01 +1 irgsp exon 18968 19057 . + . Parent=transcript:Os01t0100500-01;Name=Os01t0100500-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100500-01.exon5;rank=5 +1 irgsp CDS 18968 19057 . + 0 ID=CDS:Os01t0100500-01;Parent=transcript:Os01t0100500-01;protein_id=Os01t0100500-01 +1 irgsp exon 19142 19321 . + . Parent=transcript:Os01t0100500-01;Name=Os01t0100500-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100500-01.exon6;rank=6 +1 irgsp CDS 19142 19321 . + 0 ID=CDS:Os01t0100500-01;Parent=transcript:Os01t0100500-01;protein_id=Os01t0100500-01 +1 irgsp CDS 19531 19593 . + 0 ID=CDS:Os01t0100500-01;Parent=transcript:Os01t0100500-01;protein_id=Os01t0100500-01 +1 irgsp exon 19531 19629 . + . Parent=transcript:Os01t0100500-01;Name=Os01t0100500-01.exon7;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0100500-01.exon7;rank=7 +1 irgsp three_prime_UTR 19594 19629 . + . Parent=transcript:Os01t0100500-01 +1 irgsp exon 19734 20144 . + . Parent=transcript:Os01t0100500-01;Name=Os01t0100500-01.exon8;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0100500-01.exon8;rank=8 +1 irgsp three_prime_UTR 19734 20144 . + . Parent=transcript:Os01t0100500-01 +### +1 irgsp gene 22841 26892 . + . ID=gene:Os01g0100600;biotype=protein_coding;description=Single-stranded nucleic acid binding R3H domain containing protein. (Os01t0100600-01);gene_id=Os01g0100600;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 22841 26892 . + . ID=transcript:Os01t0100600-01;Parent=gene:Os01g0100600;biotype=protein_coding;transcript_id=Os01t0100600-01 +1 irgsp five_prime_UTR 22841 23231 . + . Parent=transcript:Os01t0100600-01 +1 irgsp exon 22841 23281 . + . Parent=transcript:Os01t0100600-01;Name=Os01t0100600-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0100600-01.exon1;rank=1 +1 irgsp CDS 23232 23281 . + 0 ID=CDS:Os01t0100600-01;Parent=transcript:Os01t0100600-01;protein_id=Os01t0100600-01 +1 irgsp exon 23572 23847 . + . Parent=transcript:Os01t0100600-01;Name=Os01t0100600-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0100600-01.exon2;rank=2 +1 irgsp CDS 23572 23847 . + 1 ID=CDS:Os01t0100600-01;Parent=transcript:Os01t0100600-01;protein_id=Os01t0100600-01 +1 irgsp exon 23962 24033 . + . Parent=transcript:Os01t0100600-01;Name=Os01t0100600-01.exon3;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0100600-01.exon3;rank=3 +1 irgsp CDS 23962 24033 . + 1 ID=CDS:Os01t0100600-01;Parent=transcript:Os01t0100600-01;protein_id=Os01t0100600-01 +1 irgsp exon 24492 24577 . + . Parent=transcript:Os01t0100600-01;Name=Os01t0100600-01.exon4;constitutive=1;ensembl_end_phase=1;ensembl_phase=2;exon_id=Os01t0100600-01.exon4;rank=4 +1 irgsp CDS 24492 24577 . + 1 ID=CDS:Os01t0100600-01;Parent=transcript:Os01t0100600-01;protein_id=Os01t0100600-01 +1 irgsp exon 25445 25519 . + . Parent=transcript:Os01t0100600-01;Name=Os01t0100600-01.exon5;constitutive=1;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0100600-01.exon5;rank=5 +1 irgsp CDS 25445 25519 . + 2 ID=CDS:Os01t0100600-01;Parent=transcript:Os01t0100600-01;protein_id=Os01t0100600-01 +1 irgsp CDS 25883 26391 . + 2 ID=CDS:Os01t0100600-01;Parent=transcript:Os01t0100600-01;protein_id=Os01t0100600-01 +1 irgsp exon 25883 26892 . + . Parent=transcript:Os01t0100600-01;Name=Os01t0100600-01.exon6;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0100600-01.exon6;rank=6 +1 irgsp three_prime_UTR 26392 26892 . + . Parent=transcript:Os01t0100600-01 +### +1 irgsp gene 25861 26424 . - . ID=gene:Os01g0100650;biotype=protein_coding;description=Hypothetical gene. (Os01t0100650-00);gene_id=Os01g0100650;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 25861 26424 . - . ID=transcript:Os01t0100650-00;Parent=gene:Os01g0100650;biotype=protein_coding;transcript_id=Os01t0100650-00 +1 irgsp three_prime_UTR 25861 26039 . - . Parent=transcript:Os01t0100650-00 +1 irgsp exon 25861 26424 . - . Parent=transcript:Os01t0100650-00;Name=Os01t0100650-00.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0100650-00.exon1;rank=1 +1 irgsp CDS 26040 26423 . - 0 ID=CDS:Os01t0100650-00;Parent=transcript:Os01t0100650-00;protein_id=Os01t0100650-00 +1 irgsp five_prime_UTR 26424 26424 . - . Parent=transcript:Os01t0100650-00 +### +1 irgsp gene 27143 28644 . + . ID=gene:Os01g0100700;biotype=protein_coding;description=Similar to 40S ribosomal protein S5-1. (Os01t0100700-01);gene_id=Os01g0100700;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 27143 28644 . + . ID=transcript:Os01t0100700-01;Parent=gene:Os01g0100700;biotype=protein_coding;transcript_id=Os01t0100700-01 +1 irgsp five_prime_UTR 27143 27220 . + . Parent=transcript:Os01t0100700-01 +1 irgsp exon 27143 27292 . + . Parent=transcript:Os01t0100700-01;Name=Os01t0100700-01.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0100700-01.exon1;rank=1 +1 irgsp CDS 27221 27292 . + 0 ID=CDS:Os01t0100700-01;Parent=transcript:Os01t0100700-01;protein_id=Os01t0100700-01 +1 irgsp exon 27370 27641 . + . Parent=transcript:Os01t0100700-01;Name=Os01t0100700-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0100700-01.exon2;rank=2 +1 irgsp CDS 27370 27641 . + 0 ID=CDS:Os01t0100700-01;Parent=transcript:Os01t0100700-01;protein_id=Os01t0100700-01 +1 irgsp exon 28090 28293 . + . Parent=transcript:Os01t0100700-01;Name=Os01t0100700-01.exon3;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0100700-01.exon3;rank=3 +1 irgsp CDS 28090 28293 . + 1 ID=CDS:Os01t0100700-01;Parent=transcript:Os01t0100700-01;protein_id=Os01t0100700-01 +1 irgsp CDS 28365 28419 . + 1 ID=CDS:Os01t0100700-01;Parent=transcript:Os01t0100700-01;protein_id=Os01t0100700-01 +1 irgsp exon 28365 28644 . + . Parent=transcript:Os01t0100700-01;Name=Os01t0100700-01.exon4;constitutive=1;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0100700-01.exon4;rank=4 +1 irgsp three_prime_UTR 28420 28644 . + . Parent=transcript:Os01t0100700-01 +### +1 irgsp gene 29818 34453 . + . ID=gene:Os01g0100800;biotype=protein_coding;description=Protein of unknown function DUF1664 family protein. (Os01t0100800-01);gene_id=Os01g0100800;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 29818 34453 . + . ID=transcript:Os01t0100800-01;Parent=gene:Os01g0100800;biotype=protein_coding;transcript_id=Os01t0100800-01 +1 irgsp five_prime_UTR 29818 29939 . + . Parent=transcript:Os01t0100800-01 +1 irgsp exon 29818 29976 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon1;constitutive=1;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0100800-01.exon1;rank=1 +1 irgsp CDS 29940 29976 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 30146 30228 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0100800-01.exon2;rank=2 +1 irgsp CDS 30146 30228 . + 2 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 30735 30806 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon3;rank=3 +1 irgsp CDS 30735 30806 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 30885 30963 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon4;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0100800-01.exon4;rank=4 +1 irgsp CDS 30885 30963 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 31258 31325 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0100800-01.exon5;rank=5 +1 irgsp CDS 31258 31325 . + 2 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 31505 31606 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon6;rank=6 +1 irgsp CDS 31505 31606 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 32377 32466 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon7;rank=7 +1 irgsp CDS 32377 32466 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 32542 32616 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon8;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon8;rank=8 +1 irgsp CDS 32542 32616 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 32712 32744 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon9;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon9;rank=9 +1 irgsp CDS 32712 32744 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 32828 32905 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon10;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon10;rank=10 +1 irgsp CDS 32828 32905 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 33274 33330 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon11;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon11;rank=11 +1 irgsp CDS 33274 33330 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 33400 33471 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon12;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon12;rank=12 +1 irgsp CDS 33400 33471 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 33543 33617 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon13;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100800-01.exon13;rank=13 +1 irgsp CDS 33543 33617 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp CDS 33975 34124 . + 0 ID=CDS:Os01t0100800-01;Parent=transcript:Os01t0100800-01;protein_id=Os01t0100800-01 +1 irgsp exon 33975 34453 . + . Parent=transcript:Os01t0100800-01;Name=Os01t0100800-01.exon14;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0100800-01.exon14;rank=14 +1 irgsp three_prime_UTR 34125 34453 . + . Parent=transcript:Os01t0100800-01 +### +1 irgsp gene 35623 41136 . + . ID=gene:Os01g0100900;Name=SPHINGOSINE-1-PHOSPHATE LYASE 1%2C Sphingosine-1-Phoshpate Lyase 1;biotype=protein_coding;description=Sphingosine-1-phosphate lyase%2C Disease resistance response (Os01t0100900-01);gene_id=Os01g0100900;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 35623 41136 . + . ID=transcript:Os01t0100900-01;Parent=gene:Os01g0100900;biotype=protein_coding;transcript_id=Os01t0100900-01 +1 irgsp five_prime_UTR 35623 35742 . + . Parent=transcript:Os01t0100900-01 +1 irgsp exon 35623 35939 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0100900-01.exon1;rank=1 +1 irgsp CDS 35743 35939 . + 0 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 36027 36072 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0100900-01.exon2;rank=2 +1 irgsp CDS 36027 36072 . + 1 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 36517 36668 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon3;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0100900-01.exon3;rank=3 +1 irgsp CDS 36517 36668 . + 0 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 36818 36877 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon4;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0100900-01.exon4;rank=4 +1 irgsp CDS 36818 36877 . + 1 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 37594 37818 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon5;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0100900-01.exon5;rank=5 +1 irgsp CDS 37594 37818 . + 1 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 37892 38033 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0100900-01.exon6;rank=6 +1 irgsp CDS 37892 38033 . + 1 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 38276 38326 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0100900-01.exon7;rank=7 +1 irgsp CDS 38276 38326 . + 0 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 38434 38525 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon8;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0100900-01.exon8;rank=8 +1 irgsp CDS 38434 38525 . + 0 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 39319 39445 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon9;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0100900-01.exon9;rank=9 +1 irgsp CDS 39319 39445 . + 1 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 39553 39568 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon10;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0100900-01.exon10;rank=10 +1 irgsp CDS 39553 39568 . + 0 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 39939 40046 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon11;constitutive=1;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0100900-01.exon11;rank=11 +1 irgsp CDS 39939 40046 . + 2 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 40135 40189 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon12;constitutive=1;ensembl_end_phase=2;ensembl_phase=1;exon_id=Os01t0100900-01.exon12;rank=12 +1 irgsp CDS 40135 40189 . + 2 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 40456 40602 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon13;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0100900-01.exon13;rank=13 +1 irgsp CDS 40456 40602 . + 1 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 40703 40781 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon14;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0100900-01.exon14;rank=14 +1 irgsp CDS 40703 40781 . + 1 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp CDS 40885 41007 . + 0 ID=CDS:Os01t0100900-01;Parent=transcript:Os01t0100900-01;protein_id=Os01t0100900-01 +1 irgsp exon 40885 41136 . + . Parent=transcript:Os01t0100900-01;Name=Os01t0100900-01.exon15;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0100900-01.exon15;rank=15 +1 irgsp three_prime_UTR 41008 41136 . + . Parent=transcript:Os01t0100900-01 +### +1 irgsp gene 58658 61090 . + . ID=gene:Os01g0101150;biotype=protein_coding;description=Hypothetical conserved gene. (Os01t0101150-00);gene_id=Os01g0101150;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 58658 61090 . + . ID=transcript:Os01t0101150-00;Parent=gene:Os01g0101150;biotype=protein_coding;transcript_id=Os01t0101150-00 +1 irgsp exon 58658 61090 . + . Parent=transcript:Os01t0101150-00;Name=Os01t0101150-00.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0101150-00.exon1;rank=1 +1 irgsp CDS 58658 61090 . + 0 ID=CDS:Os01t0101150-00;Parent=transcript:Os01t0101150-00;protein_id=Os01t0101150-00 +### +1 irgsp gene 62060 65537 . + . ID=gene:Os01g0101200;biotype=protein_coding;description=2%2C3-diketo-5-methylthio-1-phosphopentane phosphatase domain containing protein. (Os01t0101200-01)%3B2%2C3-diketo-5-methylthio-1-phosphopentane phosphatase domain containing protein. (Os01t0101200-02);gene_id=Os01g0101200;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 62060 63576 . + . ID=transcript:Os01t0101200-01;Parent=gene:Os01g0101200;biotype=protein_coding;transcript_id=Os01t0101200-01 +1 irgsp five_prime_UTR 62060 62103 . + . Parent=transcript:Os01t0101200-01 +1 irgsp exon 62060 62295 . + . Parent=transcript:Os01t0101200-01;Name=Os01t0101200-01.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0101200-01.exon1;rank=1 +1 irgsp CDS 62104 62295 . + 0 ID=CDS:Os01t0101200-01;Parent=transcript:Os01t0101200-01;protein_id=Os01t0101200-01 +1 irgsp exon 62385 62905 . + . Parent=transcript:Os01t0101200-01;Name=Os01t0101200-02.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0101200-02.exon2;rank=2 +1 irgsp CDS 62385 62905 . + 0 ID=CDS:Os01t0101200-01;Parent=transcript:Os01t0101200-01;protein_id=Os01t0101200-01 +1 irgsp exon 62996 63114 . + . Parent=transcript:Os01t0101200-01;Name=Os01t0101200-02.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=2;exon_id=Os01t0101200-02.exon3;rank=3 +1 irgsp CDS 62996 63114 . + 1 ID=CDS:Os01t0101200-01;Parent=transcript:Os01t0101200-01;protein_id=Os01t0101200-01 +1 irgsp CDS 63248 63345 . + 2 ID=CDS:Os01t0101200-01;Parent=transcript:Os01t0101200-01;protein_id=Os01t0101200-01 +1 irgsp exon 63248 63576 . + . Parent=transcript:Os01t0101200-01;Name=Os01t0101200-01.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0101200-01.exon4;rank=4 +1 irgsp three_prime_UTR 63346 63576 . + . Parent=transcript:Os01t0101200-01 +1 irgsp mRNA 62112 65537 . + . ID=transcript:Os01t0101200-02;Parent=gene:Os01g0101200;biotype=protein_coding;transcript_id=Os01t0101200-02 +1 irgsp five_prime_UTR 62112 62112 . + . Parent=transcript:Os01t0101200-02 +1 irgsp exon 62112 62295 . + . Parent=transcript:Os01t0101200-02;Name=Os01t0101200-02.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0101200-02.exon1;rank=1 +1 irgsp CDS 62113 62295 . + 0 ID=CDS:Os01t0101200-02;Parent=transcript:Os01t0101200-02;protein_id=Os01t0101200-02 +1 irgsp exon 62385 62905 . + . Parent=transcript:Os01t0101200-02;Name=Os01t0101200-02.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0101200-02.exon2;rank=2 +1 irgsp CDS 62385 62905 . + 0 ID=CDS:Os01t0101200-02;Parent=transcript:Os01t0101200-02;protein_id=Os01t0101200-02 +1 irgsp exon 62996 63114 . + . Parent=transcript:Os01t0101200-02;Name=Os01t0101200-02.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=2;exon_id=Os01t0101200-02.exon3;rank=3 +1 irgsp CDS 62996 63114 . + 1 ID=CDS:Os01t0101200-02;Parent=transcript:Os01t0101200-02;protein_id=Os01t0101200-02 +1 irgsp CDS 63248 63345 . + 2 ID=CDS:Os01t0101200-02;Parent=transcript:Os01t0101200-02;protein_id=Os01t0101200-02 +1 irgsp exon 63248 65537 . + . Parent=transcript:Os01t0101200-02;Name=Os01t0101200-02.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0101200-02.exon4;rank=4 +1 irgsp three_prime_UTR 63346 65537 . + . Parent=transcript:Os01t0101200-02 +### +1 irgsp gene 63350 66302 . - . ID=gene:Os01g0101300;biotype=protein_coding;description=Similar to MRNA%2C partial cds%2C clone: RAFL22-26-L17. (Fragment). (Os01t0101300-01);gene_id=Os01g0101300;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 63350 66302 . - . ID=transcript:Os01t0101300-01;Parent=gene:Os01g0101300;biotype=protein_coding;transcript_id=Os01t0101300-01 +1 irgsp three_prime_UTR 63350 63669 . - . Parent=transcript:Os01t0101300-01 +1 irgsp exon 63350 63783 . - . Parent=transcript:Os01t0101300-01;Name=Os01t0101300-01.exon7;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0101300-01.exon7;rank=7 +1 irgsp CDS 63670 63783 . - 0 ID=CDS:Os01t0101300-01;Parent=transcript:Os01t0101300-01;protein_id=Os01t0101300-01 +1 irgsp exon 63877 64020 . - . Parent=transcript:Os01t0101300-01;Name=Os01t0101300-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0101300-01.exon6;rank=6 +1 irgsp CDS 63877 64020 . - 0 ID=CDS:Os01t0101300-01;Parent=transcript:Os01t0101300-01;protein_id=Os01t0101300-01 +1 irgsp exon 64339 64431 . - . Parent=transcript:Os01t0101300-01;Name=Os01t0101300-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0101300-01.exon5;rank=5 +1 irgsp CDS 64339 64431 . - 0 ID=CDS:Os01t0101300-01;Parent=transcript:Os01t0101300-01;protein_id=Os01t0101300-01 +1 irgsp exon 64665 64779 . - . Parent=transcript:Os01t0101300-01;Name=Os01t0101300-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0101300-01.exon4;rank=4 +1 irgsp CDS 64665 64779 . - 1 ID=CDS:Os01t0101300-01;Parent=transcript:Os01t0101300-01;protein_id=Os01t0101300-01 +1 irgsp exon 64902 65152 . - . Parent=transcript:Os01t0101300-01;Name=Os01t0101300-01.exon3;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0101300-01.exon3;rank=3 +1 irgsp CDS 64902 65152 . - 0 ID=CDS:Os01t0101300-01;Parent=transcript:Os01t0101300-01;protein_id=Os01t0101300-01 +1 irgsp exon 65248 65431 . - . Parent=transcript:Os01t0101300-01;Name=Os01t0101300-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0101300-01.exon2;rank=2 +1 irgsp CDS 65248 65431 . - 1 ID=CDS:Os01t0101300-01;Parent=transcript:Os01t0101300-01;protein_id=Os01t0101300-01 +1 irgsp CDS 65628 65950 . - 0 ID=CDS:Os01t0101300-01;Parent=transcript:Os01t0101300-01;protein_id=Os01t0101300-01 +1 irgsp exon 65628 66302 . - . Parent=transcript:Os01t0101300-01;Name=Os01t0101300-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0101300-01.exon1;rank=1 +1 irgsp five_prime_UTR 65951 66302 . - . Parent=transcript:Os01t0101300-01 +### +1 irgsp gene 72816 78349 . + . ID=gene:Os01g0101600;biotype=protein_coding;description=Immunoglobulin-like fold domain containing protein. (Os01t0101600-01)%3BImmunoglobulin-like fold domain containing protein. (Os01t0101600-02)%3BHypothetical conserved gene. (Os01t0101600-03);gene_id=Os01g0101600;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 72816 78349 . + . ID=transcript:Os01t0101600-01;Parent=gene:Os01g0101600;biotype=protein_coding;transcript_id=Os01t0101600-01 +1 irgsp five_prime_UTR 72816 72902 . + . Parent=transcript:Os01t0101600-01 +1 irgsp exon 72816 73935 . + . Parent=transcript:Os01t0101600-01;Name=Os01t0101600-01.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0101600-01.exon1;rank=1 +1 irgsp CDS 72903 73935 . + 0 ID=CDS:Os01t0101600-01;Parent=transcript:Os01t0101600-01;protein_id=Os01t0101600-01 +1 irgsp exon 74468 74981 . + . Parent=transcript:Os01t0101600-01;Name=Os01t0101600-02.exon2;constitutive=0;ensembl_end_phase=2;ensembl_phase=1;exon_id=Os01t0101600-02.exon2;rank=2 +1 irgsp CDS 74468 74981 . + 2 ID=CDS:Os01t0101600-01;Parent=transcript:Os01t0101600-01;protein_id=Os01t0101600-01 +1 irgsp CDS 75619 77008 . + 1 ID=CDS:Os01t0101600-01;Parent=transcript:Os01t0101600-01;protein_id=Os01t0101600-01 +1 irgsp exon 75619 77205 . + . Parent=transcript:Os01t0101600-01;Name=Os01t0101600-01.exon3;constitutive=0;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0101600-01.exon3;rank=3 +1 irgsp three_prime_UTR 77009 77205 . + . Parent=transcript:Os01t0101600-01 +1 irgsp exon 77333 78349 . + . Parent=transcript:Os01t0101600-01;Name=Os01t0101600-01.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0101600-01.exon4;rank=4 +1 irgsp three_prime_UTR 77333 78349 . + . Parent=transcript:Os01t0101600-01 +1 irgsp mRNA 72823 77699 . + . ID=transcript:Os01t0101600-02;Parent=gene:Os01g0101600;biotype=protein_coding;transcript_id=Os01t0101600-02 +1 irgsp five_prime_UTR 72823 72902 . + . Parent=transcript:Os01t0101600-02 +1 irgsp exon 72823 73935 . + . Parent=transcript:Os01t0101600-02;Name=Os01t0101600-02.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0101600-02.exon1;rank=1 +1 irgsp CDS 72903 73935 . + 0 ID=CDS:Os01t0101600-02;Parent=transcript:Os01t0101600-02;protein_id=Os01t0101600-02 +1 irgsp exon 74468 74981 . + . Parent=transcript:Os01t0101600-02;Name=Os01t0101600-02.exon2;constitutive=0;ensembl_end_phase=2;ensembl_phase=1;exon_id=Os01t0101600-02.exon2;rank=2 +1 irgsp CDS 74468 74981 . + 2 ID=CDS:Os01t0101600-02;Parent=transcript:Os01t0101600-02;protein_id=Os01t0101600-02 +1 irgsp CDS 75619 77008 . + 1 ID=CDS:Os01t0101600-02;Parent=transcript:Os01t0101600-02;protein_id=Os01t0101600-02 +1 irgsp exon 75619 77699 . + . Parent=transcript:Os01t0101600-02;Name=Os01t0101600-02.exon3;constitutive=0;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0101600-02.exon3;rank=3 +1 irgsp three_prime_UTR 77009 77699 . + . Parent=transcript:Os01t0101600-02 +1 irgsp mRNA 75942 77699 . + . ID=transcript:Os01t0101600-03;Parent=gene:Os01g0101600;biotype=protein_coding;transcript_id=Os01t0101600-03 +1 irgsp five_prime_UTR 75942 75943 . + . Parent=transcript:Os01t0101600-03 +1 irgsp exon 75942 77699 . + . Parent=transcript:Os01t0101600-03;Name=Os01t0101600-03.exon1;constitutive=0;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0101600-03.exon1;rank=1 +1 irgsp CDS 75944 77008 . + 0 ID=CDS:Os01t0101600-03;Parent=transcript:Os01t0101600-03;protein_id=Os01t0101600-03 +1 irgsp three_prime_UTR 77009 77699 . + . Parent=transcript:Os01t0101600-03 +### +1 irgsp gene 82426 84095 . + . ID=gene:Os01g0101700;Name=DnaJ domain protein C1%2C rice DJC26 homolog;biotype=protein_coding;description=Similar to chaperone protein dnaJ 20. (Os01t0101700-00);gene_id=Os01g0101700;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 82426 84095 . + . ID=transcript:Os01t0101700-00;Parent=gene:Os01g0101700;biotype=protein_coding;transcript_id=Os01t0101700-00 +1 irgsp five_prime_UTR 82426 82506 . + . Parent=transcript:Os01t0101700-00 +1 irgsp exon 82426 82932 . + . Parent=transcript:Os01t0101700-00;Name=Os01t0101700-00.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0101700-00.exon1;rank=1 +1 irgsp CDS 82507 82932 . + 0 ID=CDS:Os01t0101700-00;Parent=transcript:Os01t0101700-00;protein_id=Os01t0101700-00 +1 irgsp CDS 83724 83864 . + 0 ID=CDS:Os01t0101700-00;Parent=transcript:Os01t0101700-00;protein_id=Os01t0101700-00 +1 irgsp exon 83724 84095 . + . Parent=transcript:Os01t0101700-00;Name=Os01t0101700-00.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0101700-00.exon2;rank=2 +1 irgsp three_prime_UTR 83865 84095 . + . Parent=transcript:Os01t0101700-00 +### +1 irgsp gene 85337 88844 . + . ID=gene:Os01g0101800;biotype=protein_coding;description=Conserved hypothetical protein. (Os01t0101800-01);gene_id=Os01g0101800;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 85337 88844 . + . ID=transcript:Os01t0101800-01;Parent=gene:Os01g0101800;biotype=protein_coding;transcript_id=Os01t0101800-01 +1 irgsp five_prime_UTR 85337 85378 . + . Parent=transcript:Os01t0101800-01 +1 irgsp exon 85337 85600 . + . Parent=transcript:Os01t0101800-01;Name=Os01t0101800-01.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0101800-01.exon1;rank=1 +1 irgsp CDS 85379 85600 . + 0 ID=CDS:Os01t0101800-01;Parent=transcript:Os01t0101800-01;protein_id=Os01t0101800-01 +1 irgsp exon 85737 85830 . + . Parent=transcript:Os01t0101800-01;Name=Os01t0101800-01.exon2;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0101800-01.exon2;rank=2 +1 irgsp CDS 85737 85830 . + 0 ID=CDS:Os01t0101800-01;Parent=transcript:Os01t0101800-01;protein_id=Os01t0101800-01 +1 irgsp exon 85935 86086 . + . Parent=transcript:Os01t0101800-01;Name=Os01t0101800-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0101800-01.exon3;rank=3 +1 irgsp CDS 85935 86086 . + 2 ID=CDS:Os01t0101800-01;Parent=transcript:Os01t0101800-01;protein_id=Os01t0101800-01 +1 irgsp exon 86212 86299 . + . Parent=transcript:Os01t0101800-01;Name=Os01t0101800-01.exon4;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0101800-01.exon4;rank=4 +1 irgsp CDS 86212 86299 . + 0 ID=CDS:Os01t0101800-01;Parent=transcript:Os01t0101800-01;protein_id=Os01t0101800-01 +1 irgsp exon 86399 87681 . + . Parent=transcript:Os01t0101800-01;Name=Os01t0101800-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0101800-01.exon5;rank=5 +1 irgsp CDS 86399 87681 . + 2 ID=CDS:Os01t0101800-01;Parent=transcript:Os01t0101800-01;protein_id=Os01t0101800-01 +1 irgsp exon 88291 88398 . + . Parent=transcript:Os01t0101800-01;Name=Os01t0101800-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0101800-01.exon6;rank=6 +1 irgsp CDS 88291 88398 . + 0 ID=CDS:Os01t0101800-01;Parent=transcript:Os01t0101800-01;protein_id=Os01t0101800-01 +1 irgsp CDS 88500 88583 . + 0 ID=CDS:Os01t0101800-01;Parent=transcript:Os01t0101800-01;protein_id=Os01t0101800-01 +1 irgsp exon 88500 88844 . + . Parent=transcript:Os01t0101800-01;Name=Os01t0101800-01.exon7;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0101800-01.exon7;rank=7 +1 irgsp three_prime_UTR 88584 88844 . + . Parent=transcript:Os01t0101800-01 +### +1 irgsp gene 86211 88583 . - . ID=gene:Os01g0101850;biotype=protein_coding;description=Hypothetical protein. (Os01t0101850-00);gene_id=Os01g0101850;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 86211 88583 . - . ID=transcript:Os01t0101850-00;Parent=gene:Os01g0101850;biotype=protein_coding;transcript_id=Os01t0101850-00 +1 irgsp exon 86211 86277 . - . Parent=transcript:Os01t0101850-00;Name=Os01t0101850-00.exon4;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0101850-00.exon4;rank=4 +1 irgsp three_prime_UTR 86211 86277 . - . Parent=transcript:Os01t0101850-00 +1 irgsp three_prime_UTR 86384 87326 . - . Parent=transcript:Os01t0101850-00 +1 irgsp exon 86384 87694 . - . Parent=transcript:Os01t0101850-00;Name=Os01t0101850-00.exon3;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0101850-00.exon3;rank=3 +1 irgsp CDS 87327 87662 . - 0 ID=CDS:Os01t0101850-00;Parent=transcript:Os01t0101850-00;protein_id=Os01t0101850-00 +1 irgsp five_prime_UTR 87663 87694 . - . Parent=transcript:Os01t0101850-00 +1 irgsp exon 88308 88396 . - . Parent=transcript:Os01t0101850-00;Name=Os01t0101850-00.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0101850-00.exon2;rank=2 +1 irgsp five_prime_UTR 88308 88396 . - . Parent=transcript:Os01t0101850-00 +1 irgsp exon 88496 88583 . - . Parent=transcript:Os01t0101850-00;Name=Os01t0101850-00.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0101850-00.exon1;rank=1 +1 irgsp five_prime_UTR 88496 88583 . - . Parent=transcript:Os01t0101850-00 +### +1 irgsp gene 88883 89228 . - . ID=gene:Os01g0101900;biotype=protein_coding;description=Similar to OSIGBa0075F02.3 protein. (Os01t0101900-00);gene_id=Os01g0101900;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 88883 89228 . - . ID=transcript:Os01t0101900-00;Parent=gene:Os01g0101900;biotype=protein_coding;transcript_id=Os01t0101900-00 +1 irgsp three_prime_UTR 88883 88985 . - . Parent=transcript:Os01t0101900-00 +1 irgsp exon 88883 89228 . - . Parent=transcript:Os01t0101900-00;Name=Os01t0101900-00.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0101900-00.exon1;rank=1 +1 irgsp CDS 88986 89204 . - 0 ID=CDS:Os01t0101900-00;Parent=transcript:Os01t0101900-00;protein_id=Os01t0101900-00 +1 irgsp five_prime_UTR 89205 89228 . - . Parent=transcript:Os01t0101900-00 +### +1 irgsp gene 89763 91465 . - . ID=gene:Os01g0102000;Name=NON-SPECIFIC PHOSPHOLIPASE C5;biotype=protein_coding;description=Phosphoesterase family protein. (Os01t0102000-01);gene_id=Os01g0102000;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 89763 91465 . - . ID=transcript:Os01t0102000-01;Parent=gene:Os01g0102000;biotype=protein_coding;transcript_id=Os01t0102000-01 +1 irgsp three_prime_UTR 89763 89824 . - . Parent=transcript:Os01t0102000-01 +1 irgsp exon 89763 91465 . - . Parent=transcript:Os01t0102000-01;Name=Os01t0102000-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0102000-01.exon1;rank=1 +1 irgsp CDS 89825 91411 . - 0 ID=CDS:Os01t0102000-01;Parent=transcript:Os01t0102000-01;protein_id=Os01t0102000-01 +1 irgsp five_prime_UTR 91412 91465 . - . Parent=transcript:Os01t0102000-01 +### +1 irgsp gene 134300 135439 . + . ID=gene:Os01g0102300;Name=OsTLP27;biotype=protein_coding;description=Thylakoid lumen protein%2C Photosynthesis and chloroplast development (Os01t0102300-01);gene_id=Os01g0102300;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 134300 135439 . + . ID=transcript:Os01t0102300-01;Parent=gene:Os01g0102300;biotype=protein_coding;transcript_id=Os01t0102300-01 +1 irgsp five_prime_UTR 134300 134310 . + . Parent=transcript:Os01t0102300-01 +1 irgsp exon 134300 134615 . + . Parent=transcript:Os01t0102300-01;Name=Os01t0102300-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0102300-01.exon1;rank=1 +1 irgsp CDS 134311 134615 . + 0 ID=CDS:Os01t0102300-01;Parent=transcript:Os01t0102300-01;protein_id=Os01t0102300-01 +1 irgsp exon 134698 134824 . + . Parent=transcript:Os01t0102300-01;Name=Os01t0102300-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0102300-01.exon2;rank=2 +1 irgsp CDS 134698 134824 . + 1 ID=CDS:Os01t0102300-01;Parent=transcript:Os01t0102300-01;protein_id=Os01t0102300-01 +1 irgsp CDS 134912 135253 . + 0 ID=CDS:Os01t0102300-01;Parent=transcript:Os01t0102300-01;protein_id=Os01t0102300-01 +1 irgsp exon 134912 135439 . + . Parent=transcript:Os01t0102300-01;Name=Os01t0102300-01.exon3;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0102300-01.exon3;rank=3 +1 irgsp three_prime_UTR 135254 135439 . + . Parent=transcript:Os01t0102300-01 +### +1 irgsp gene 139826 141555 . + . ID=gene:Os01g0102400;Name=HAP5H SUBUNIT OF CCAAT-BOX BINDING COMPLEX;biotype=protein_coding;description=Histone-fold domain containing protein. (Os01t0102400-01);gene_id=Os01g0102400;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 139826 141555 . + . ID=transcript:Os01t0102400-01;Parent=gene:Os01g0102400;biotype=protein_coding;transcript_id=Os01t0102400-01 +1 irgsp exon 139826 139906 . + . Parent=transcript:Os01t0102400-01;Name=Os01t0102400-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0102400-01.exon1;rank=1 +1 irgsp five_prime_UTR 139826 139906 . + . Parent=transcript:Os01t0102400-01 +1 irgsp five_prime_UTR 140120 140149 . + . Parent=transcript:Os01t0102400-01 +1 irgsp exon 140120 141555 . + . Parent=transcript:Os01t0102400-01;Name=Os01t0102400-01.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0102400-01.exon2;rank=2 +1 irgsp CDS 140150 141415 . + 0 ID=CDS:Os01t0102400-01;Parent=transcript:Os01t0102400-01;protein_id=Os01t0102400-01 +1 irgsp three_prime_UTR 141416 141555 . + . Parent=transcript:Os01t0102400-01 +### +1 irgsp gene 141959 144554 . + . ID=gene:Os01g0102500;biotype=protein_coding;description=Conserved hypothetical protein. (Os01t0102500-01);gene_id=Os01g0102500;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 141959 144554 . + . ID=transcript:Os01t0102500-01;Parent=gene:Os01g0102500;biotype=protein_coding;transcript_id=Os01t0102500-01 +1 irgsp five_prime_UTR 141959 142083 . + . Parent=transcript:Os01t0102500-01 +1 irgsp exon 141959 142631 . + . Parent=transcript:Os01t0102500-01;Name=Os01t0102500-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0102500-01.exon1;rank=1 +1 irgsp CDS 142084 142631 . + 0 ID=CDS:Os01t0102500-01;Parent=transcript:Os01t0102500-01;protein_id=Os01t0102500-01 +1 irgsp exon 143191 143431 . + . Parent=transcript:Os01t0102500-01;Name=Os01t0102500-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0102500-01.exon2;rank=2 +1 irgsp CDS 143191 143431 . + 1 ID=CDS:Os01t0102500-01;Parent=transcript:Os01t0102500-01;protein_id=Os01t0102500-01 +1 irgsp exon 143563 143680 . + . Parent=transcript:Os01t0102500-01;Name=Os01t0102500-01.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0102500-01.exon3;rank=3 +1 irgsp CDS 143563 143680 . + 0 ID=CDS:Os01t0102500-01;Parent=transcript:Os01t0102500-01;protein_id=Os01t0102500-01 +1 irgsp CDS 143817 143908 . + 2 ID=CDS:Os01t0102500-01;Parent=transcript:Os01t0102500-01;protein_id=Os01t0102500-01 +1 irgsp exon 143817 144554 . + . Parent=transcript:Os01t0102500-01;Name=Os01t0102500-01.exon4;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0102500-01.exon4;rank=4 +1 irgsp three_prime_UTR 143909 144554 . + . Parent=transcript:Os01t0102500-01 +### +1 irgsp gene 145603 147847 . + . ID=gene:Os01g0102600;Name=Shikimate kinase 4;biotype=protein_coding;description=Shikimate kinase domain containing protein. (Os01t0102600-01)%3BSimilar to shikimate kinase family protein. (Os01t0102600-02);gene_id=Os01g0102600;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 145603 147847 . + . ID=transcript:Os01t0102600-01;Parent=gene:Os01g0102600;biotype=protein_coding;transcript_id=Os01t0102600-01 +1 irgsp five_prime_UTR 145603 145644 . + . Parent=transcript:Os01t0102600-01 +1 irgsp exon 145603 145786 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-01.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0102600-01.exon1;rank=1 +1 irgsp CDS 145645 145786 . + 0 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp exon 145905 145951 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-01.exon2;constitutive=0;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0102600-01.exon2;rank=2 +1 irgsp CDS 145905 145951 . + 2 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp exon 146028 146082 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-01.exon3;constitutive=0;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0102600-01.exon3;rank=3 +1 irgsp CDS 146028 146082 . + 0 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp exon 146179 146339 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-01.exon4;constitutive=0;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0102600-01.exon4;rank=4 +1 irgsp CDS 146179 146339 . + 2 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp exon 146450 146532 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-01.exon5;constitutive=0;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0102600-01.exon5;rank=5 +1 irgsp CDS 146450 146532 . + 0 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp exon 146611 146719 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-01.exon6;constitutive=0;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0102600-01.exon6;rank=6 +1 irgsp CDS 146611 146719 . + 1 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp exon 147106 147184 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-01.exon7;constitutive=0;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0102600-01.exon7;rank=7 +1 irgsp CDS 147106 147184 . + 0 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp exon 147311 147375 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-02.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0102600-02.exon2;rank=8 +1 irgsp CDS 147311 147375 . + 2 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp CDS 147507 147575 . + 0 ID=CDS:Os01t0102600-01;Parent=transcript:Os01t0102600-01;protein_id=Os01t0102600-01 +1 irgsp exon 147507 147847 . + . Parent=transcript:Os01t0102600-01;Name=Os01t0102600-01.exon9;constitutive=0;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0102600-01.exon9;rank=9 +1 irgsp three_prime_UTR 147576 147847 . + . Parent=transcript:Os01t0102600-01 +1 irgsp mRNA 147104 147805 . + . ID=transcript:Os01t0102600-02;Parent=gene:Os01g0102600;biotype=protein_coding;transcript_id=Os01t0102600-02 +1 irgsp five_prime_UTR 147104 147105 . + . Parent=transcript:Os01t0102600-02 +1 irgsp exon 147104 147184 . + . Parent=transcript:Os01t0102600-02;Name=Os01t0102600-02.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0102600-02.exon1;rank=1 +1 irgsp CDS 147106 147184 . + 0 ID=CDS:Os01t0102600-02;Parent=transcript:Os01t0102600-02;protein_id=Os01t0102600-02 +1 irgsp exon 147311 147375 . + . Parent=transcript:Os01t0102600-02;Name=Os01t0102600-02.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0102600-02.exon2;rank=2 +1 irgsp CDS 147311 147375 . + 2 ID=CDS:Os01t0102600-02;Parent=transcript:Os01t0102600-02;protein_id=Os01t0102600-02 +1 irgsp CDS 147507 147575 . + 0 ID=CDS:Os01t0102600-02;Parent=transcript:Os01t0102600-02;protein_id=Os01t0102600-02 +1 irgsp exon 147507 147805 . + . Parent=transcript:Os01t0102600-02;Name=Os01t0102600-02.exon3;constitutive=0;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0102600-02.exon3;rank=3 +1 irgsp three_prime_UTR 147576 147805 . + . Parent=transcript:Os01t0102600-02 +### +1 irgsp gene 148085 150568 . + . ID=gene:Os01g0102700;biotype=protein_coding;description=Translocon-associated beta family protein. (Os01t0102700-01);gene_id=Os01g0102700;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 148085 150568 . + . ID=transcript:Os01t0102700-01;Parent=gene:Os01g0102700;biotype=protein_coding;transcript_id=Os01t0102700-01 +1 irgsp five_prime_UTR 148085 148146 . + . Parent=transcript:Os01t0102700-01 +1 irgsp exon 148085 148313 . + . Parent=transcript:Os01t0102700-01;Name=Os01t0102700-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0102700-01.exon1;rank=1 +1 irgsp CDS 148147 148313 . + 0 ID=CDS:Os01t0102700-01;Parent=transcript:Os01t0102700-01;protein_id=Os01t0102700-01 +1 irgsp exon 149450 149548 . + . Parent=transcript:Os01t0102700-01;Name=Os01t0102700-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0102700-01.exon2;rank=2 +1 irgsp CDS 149450 149548 . + 1 ID=CDS:Os01t0102700-01;Parent=transcript:Os01t0102700-01;protein_id=Os01t0102700-01 +1 irgsp exon 149634 149742 . + . Parent=transcript:Os01t0102700-01;Name=Os01t0102700-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0102700-01.exon3;rank=3 +1 irgsp CDS 149634 149742 . + 1 ID=CDS:Os01t0102700-01;Parent=transcript:Os01t0102700-01;protein_id=Os01t0102700-01 +1 irgsp exon 149856 149931 . + . Parent=transcript:Os01t0102700-01;Name=Os01t0102700-01.exon4;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0102700-01.exon4;rank=4 +1 irgsp CDS 149856 149931 . + 0 ID=CDS:Os01t0102700-01;Parent=transcript:Os01t0102700-01;protein_id=Os01t0102700-01 +1 irgsp CDS 150152 150318 . + 2 ID=CDS:Os01t0102700-01;Parent=transcript:Os01t0102700-01;protein_id=Os01t0102700-01 +1 irgsp exon 150152 150568 . + . Parent=transcript:Os01t0102700-01;Name=Os01t0102700-01.exon5;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0102700-01.exon5;rank=5 +1 irgsp three_prime_UTR 150319 150568 . + . Parent=transcript:Os01t0102700-01 +### +1 irgsp gene 152853 156449 . + . ID=gene:Os01g0102800;Name=Cockayne syndrome WD-repeat protein;biotype=protein_coding;description=Similar to chromatin remodeling complex subunit. (Os01t0102800-01);gene_id=Os01g0102800;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 152853 156449 . + . ID=transcript:Os01t0102800-01;Parent=gene:Os01g0102800;biotype=protein_coding;transcript_id=Os01t0102800-01 +1 irgsp five_prime_UTR 152853 152853 . + . Parent=transcript:Os01t0102800-01 +1 irgsp exon 152853 153025 . + . Parent=transcript:Os01t0102800-01;Name=Os01t0102800-01.exon1;constitutive=1;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0102800-01.exon1;rank=1 +1 irgsp CDS 152854 153025 . + 0 ID=CDS:Os01t0102800-01;Parent=transcript:Os01t0102800-01;protein_id=Os01t0102800-01 +1 irgsp exon 153178 154646 . + . Parent=transcript:Os01t0102800-01;Name=Os01t0102800-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0102800-01.exon2;rank=2 +1 irgsp CDS 153178 154646 . + 2 ID=CDS:Os01t0102800-01;Parent=transcript:Os01t0102800-01;protein_id=Os01t0102800-01 +1 irgsp exon 155010 155450 . + . Parent=transcript:Os01t0102800-01;Name=Os01t0102800-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0102800-01.exon3;rank=3 +1 irgsp CDS 155010 155450 . + 0 ID=CDS:Os01t0102800-01;Parent=transcript:Os01t0102800-01;protein_id=Os01t0102800-01 +1 irgsp CDS 155543 156214 . + 0 ID=CDS:Os01t0102800-01;Parent=transcript:Os01t0102800-01;protein_id=Os01t0102800-01 +1 irgsp exon 155543 156449 . + . Parent=transcript:Os01t0102800-01;Name=Os01t0102800-01.exon4;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0102800-01.exon4;rank=4 +1 irgsp three_prime_UTR 156215 156449 . + . Parent=transcript:Os01t0102800-01 +### +1 irgsp gene 164577 168921 . + . ID=gene:Os01g0102850;biotype=protein_coding;description=Similar to nitrilase 2. (Os01t0102850-00);gene_id=Os01g0102850;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 164577 168921 . + . ID=transcript:Os01t0102850-00;Parent=gene:Os01g0102850;biotype=protein_coding;transcript_id=Os01t0102850-00 +1 irgsp exon 164577 164905 . + . Parent=transcript:Os01t0102850-00;Name=Os01t0102850-00.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0102850-00.exon1;rank=1 +1 irgsp five_prime_UTR 164577 164905 . + . Parent=transcript:Os01t0102850-00 +1 irgsp five_prime_UTR 168499 168804 . + . Parent=transcript:Os01t0102850-00 +1 irgsp exon 168499 168921 . + . Parent=transcript:Os01t0102850-00;Name=Os01t0102850-00.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0102850-00.exon2;rank=2 +1 irgsp CDS 168805 168921 . + 0 ID=CDS:Os01t0102850-00;Parent=transcript:Os01t0102850-00;protein_id=Os01t0102850-00 +### +1 irgsp gene 169390 170316 . - . ID=gene:Os01g0102900;Name=LIGHT-REGULATED GENE 1;biotype=protein_coding;description=Light-regulated protein%2C Regulation of light-dependent attachment of LEAF-TYPE FERREDOXIN-NADP+ OXIDOREDUCTASE (LFNR) to the thylakoid membrane (Os01t0102900-01);gene_id=Os01g0102900;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 169390 170316 . - . ID=transcript:Os01t0102900-01;Parent=gene:Os01g0102900;biotype=protein_coding;transcript_id=Os01t0102900-01 +1 irgsp three_prime_UTR 169390 169598 . - . Parent=transcript:Os01t0102900-01 +1 irgsp exon 169390 169656 . - . Parent=transcript:Os01t0102900-01;Name=Os01t0102900-01.exon3;constitutive=1;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0102900-01.exon3;rank=3 +1 irgsp CDS 169599 169656 . - 1 ID=CDS:Os01t0102900-01;Parent=transcript:Os01t0102900-01;protein_id=Os01t0102900-01 +1 irgsp exon 169751 169909 . - . Parent=transcript:Os01t0102900-01;Name=Os01t0102900-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=2;exon_id=Os01t0102900-01.exon2;rank=2 +1 irgsp CDS 169751 169909 . - 1 ID=CDS:Os01t0102900-01;Parent=transcript:Os01t0102900-01;protein_id=Os01t0102900-01 +1 irgsp CDS 170091 170260 . - 0 ID=CDS:Os01t0102900-01;Parent=transcript:Os01t0102900-01;protein_id=Os01t0102900-01 +1 irgsp exon 170091 170316 . - . Parent=transcript:Os01t0102900-01;Name=Os01t0102900-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0102900-01.exon1;rank=1 +1 irgsp five_prime_UTR 170261 170316 . - . Parent=transcript:Os01t0102900-01 +### +1 irgsp gene 170798 173144 . - . ID=gene:Os01g0103000;biotype=protein_coding;description=Snf7 family protein. (Os01t0103000-01);gene_id=Os01g0103000;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 170798 173144 . - . ID=transcript:Os01t0103000-01;Parent=gene:Os01g0103000;biotype=protein_coding;transcript_id=Os01t0103000-01 +1 irgsp three_prime_UTR 170798 171044 . - . Parent=transcript:Os01t0103000-01 +1 irgsp exon 170798 171095 . - . Parent=transcript:Os01t0103000-01;Name=Os01t0103000-01.exon7;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0103000-01.exon7;rank=7 +1 irgsp CDS 171045 171095 . - 0 ID=CDS:Os01t0103000-01;Parent=transcript:Os01t0103000-01;protein_id=Os01t0103000-01 +1 irgsp exon 171406 171554 . - . Parent=transcript:Os01t0103000-01;Name=Os01t0103000-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0103000-01.exon6;rank=6 +1 irgsp CDS 171406 171554 . - 2 ID=CDS:Os01t0103000-01;Parent=transcript:Os01t0103000-01;protein_id=Os01t0103000-01 +1 irgsp exon 171764 171875 . - . Parent=transcript:Os01t0103000-01;Name=Os01t0103000-01.exon5;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0103000-01.exon5;rank=5 +1 irgsp CDS 171764 171875 . - 0 ID=CDS:Os01t0103000-01;Parent=transcript:Os01t0103000-01;protein_id=Os01t0103000-01 +1 irgsp exon 172398 172469 . - . Parent=transcript:Os01t0103000-01;Name=Os01t0103000-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0103000-01.exon4;rank=4 +1 irgsp CDS 172398 172469 . - 0 ID=CDS:Os01t0103000-01;Parent=transcript:Os01t0103000-01;protein_id=Os01t0103000-01 +1 irgsp exon 172578 172671 . - . Parent=transcript:Os01t0103000-01;Name=Os01t0103000-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0103000-01.exon3;rank=3 +1 irgsp CDS 172578 172671 . - 1 ID=CDS:Os01t0103000-01;Parent=transcript:Os01t0103000-01;protein_id=Os01t0103000-01 +1 irgsp exon 172770 172921 . - . Parent=transcript:Os01t0103000-01;Name=Os01t0103000-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0103000-01.exon2;rank=2 +1 irgsp CDS 172770 172921 . - 0 ID=CDS:Os01t0103000-01;Parent=transcript:Os01t0103000-01;protein_id=Os01t0103000-01 +1 irgsp CDS 173004 173072 . - 0 ID=CDS:Os01t0103000-01;Parent=transcript:Os01t0103000-01;protein_id=Os01t0103000-01 +1 irgsp exon 173004 173144 . - . Parent=transcript:Os01t0103000-01;Name=Os01t0103000-01.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0103000-01.exon1;rank=1 +1 irgsp five_prime_UTR 173073 173144 . - . Parent=transcript:Os01t0103000-01 +### +1 irgsp gene 178607 180575 . + . ID=gene:Os01g0103100;biotype=protein_coding;description=TGF-beta receptor%2C type I/II extracellular region family protein. (Os01t0103100-01)%3BSimilar to predicted protein. (Os01t0103100-02);gene_id=Os01g0103100;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 178607 180548 . + . ID=transcript:Os01t0103100-01;Parent=gene:Os01g0103100;biotype=protein_coding;transcript_id=Os01t0103100-01 +1 irgsp five_prime_UTR 178607 178641 . + . Parent=transcript:Os01t0103100-01 +1 irgsp exon 178607 180548 . + . Parent=transcript:Os01t0103100-01;Name=Os01t0103100-01.exon1;constitutive=0;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103100-01.exon1;rank=1 +1 irgsp CDS 178642 180462 . + 0 ID=CDS:Os01t0103100-01;Parent=transcript:Os01t0103100-01;protein_id=Os01t0103100-01 +1 irgsp three_prime_UTR 180463 180548 . + . Parent=transcript:Os01t0103100-01 +1 irgsp mRNA 178652 180575 . + . ID=transcript:Os01t0103100-02;Parent=gene:Os01g0103100;biotype=protein_coding;transcript_id=Os01t0103100-02 +1 irgsp five_prime_UTR 178652 178677 . + . Parent=transcript:Os01t0103100-02 +1 irgsp exon 178652 180575 . + . Parent=transcript:Os01t0103100-02;Name=Os01t0103100-02.exon1;constitutive=0;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103100-02.exon1;rank=1 +1 irgsp CDS 178678 180462 . + 0 ID=CDS:Os01t0103100-02;Parent=transcript:Os01t0103100-02;protein_id=Os01t0103100-02 +1 irgsp three_prime_UTR 180463 180575 . + . Parent=transcript:Os01t0103100-02 +### +1 irgsp gene 178815 180433 . - . ID=gene:Os01g0103075;biotype=protein_coding;description=Hypothetical protein. (Os01t0103075-00);gene_id=Os01g0103075;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 178815 180433 . - . ID=transcript:Os01t0103075-00;Parent=gene:Os01g0103075;biotype=protein_coding;transcript_id=Os01t0103075-00 +1 irgsp three_prime_UTR 178815 179511 . - . Parent=transcript:Os01t0103075-00 +1 irgsp exon 178815 180433 . - . Parent=transcript:Os01t0103075-00;Name=Os01t0103075-00.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103075-00.exon1;rank=1 +1 irgsp CDS 179512 180054 . - 0 ID=CDS:Os01t0103075-00;Parent=transcript:Os01t0103075-00;protein_id=Os01t0103075-00 +1 irgsp five_prime_UTR 180055 180433 . - . Parent=transcript:Os01t0103075-00 +### +1 Ensembl_Plants ncRNA_gene 182074 182154 . + . ID=gene:ENSRNA049442722;Name=tRNA-Leu;biotype=tRNA;description=tRNA-Leu for anticodon AAG;gene_id=ENSRNA049442722;logic_name=trnascan_gene +1 Ensembl_Plants tRNA 182074 182154 . + . ID=transcript:ENSRNA049442722-T1;Parent=gene:ENSRNA049442722;biotype=tRNA;transcript_id=ENSRNA049442722-T1 +1 Ensembl_Plants exon 182074 182154 . + . Parent=transcript:ENSRNA049442722-T1;Name=ENSRNA049442722-E1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSRNA049442722-E1;rank=1 +### +1 irgsp gene 185189 185828 . - . ID=gene:Os01g0103400;biotype=protein_coding;description=Hypothetical gene. (Os01t0103400-01);gene_id=Os01g0103400;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 185189 185828 . - . ID=transcript:Os01t0103400-01;Parent=gene:Os01g0103400;biotype=protein_coding;transcript_id=Os01t0103400-01 +1 irgsp three_prime_UTR 185189 185434 . - . Parent=transcript:Os01t0103400-01 +1 irgsp exon 185189 185828 . - . Parent=transcript:Os01t0103400-01;Name=Os01t0103400-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103400-01.exon1;rank=1 +1 irgsp CDS 185435 185827 . - 0 ID=CDS:Os01t0103400-01;Parent=transcript:Os01t0103400-01;protein_id=Os01t0103400-01 +1 irgsp five_prime_UTR 185828 185828 . - . Parent=transcript:Os01t0103400-01 +### +1 irgsp repeat_region 186000 186100 . + . ID=fakeRepeat2 +### +1 irgsp gene 186250 190904 . - . ID=gene:Os01g0103600;biotype=protein_coding;description=Similar to sterol-8%2C7-isomerase. (Os01t0103600-01)%3BEmopamil-binding family protein. (Os01t0103600-02);gene_id=Os01g0103600;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 186250 190262 . - . ID=transcript:Os01t0103600-02;Parent=gene:Os01g0103600;biotype=protein_coding;transcript_id=Os01t0103600-02 +1 irgsp three_prime_UTR 186250 186515 . - . Parent=transcript:Os01t0103600-02 +1 irgsp exon 186250 186771 . - . Parent=transcript:Os01t0103600-02;Name=Os01t0103600-02.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0103600-02.exon4;rank=4 +1 irgsp CDS 186516 186771 . - 1 ID=CDS:Os01t0103600-02;Parent=transcript:Os01t0103600-02;protein_id=Os01t0103600-02 +1 irgsp exon 189607 189715 . - . Parent=transcript:Os01t0103600-02;Name=Os01t0103600-02.exon3;constitutive=0;ensembl_end_phase=2;ensembl_phase=1;exon_id=Os01t0103600-02.exon3;rank=3 +1 irgsp CDS 189607 189715 . - 2 ID=CDS:Os01t0103600-02;Parent=transcript:Os01t0103600-02;protein_id=Os01t0103600-02 +1 irgsp exon 189841 189990 . - . Parent=transcript:Os01t0103600-02;Name=Os01t0103600-02.exon2;constitutive=1;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0103600-02.exon2;rank=2 +1 irgsp CDS 189841 189990 . - 2 ID=CDS:Os01t0103600-02;Parent=transcript:Os01t0103600-02;protein_id=Os01t0103600-02 +1 irgsp CDS 190087 190231 . - 0 ID=CDS:Os01t0103600-02;Parent=transcript:Os01t0103600-02;protein_id=Os01t0103600-02 +1 irgsp exon 190087 190262 . - . Parent=transcript:Os01t0103600-02;Name=Os01t0103600-02.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0103600-02.exon1;rank=1 +1 irgsp five_prime_UTR 190232 190262 . - . Parent=transcript:Os01t0103600-02 +1 irgsp mRNA 187345 190904 . - . ID=transcript:Os01t0103600-01;Parent=gene:Os01g0103600;biotype=protein_coding;transcript_id=Os01t0103600-01 +1 irgsp three_prime_UTR 187345 189395 . - . Parent=transcript:Os01t0103600-01 +1 irgsp exon 187345 189715 . - . Parent=transcript:Os01t0103600-01;Name=Os01t0103600-01.exon3;constitutive=0;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0103600-01.exon3;rank=3 +1 irgsp CDS 189396 189715 . - 2 ID=CDS:Os01t0103600-01;Parent=transcript:Os01t0103600-01;protein_id=Os01t0103600-01 +1 irgsp exon 189841 189990 . - . Parent=transcript:Os01t0103600-01;Name=Os01t0103600-02.exon2;constitutive=1;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0103600-02.exon2;rank=2 +1 irgsp CDS 189841 189990 . - 2 ID=CDS:Os01t0103600-01;Parent=transcript:Os01t0103600-01;protein_id=Os01t0103600-01 +1 irgsp CDS 190087 190231 . - 0 ID=CDS:Os01t0103600-01;Parent=transcript:Os01t0103600-01;protein_id=Os01t0103600-01 +1 irgsp exon 190087 190904 . - . Parent=transcript:Os01t0103600-01;Name=Os01t0103600-01.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0103600-01.exon1;rank=1 +1 irgsp five_prime_UTR 190232 190904 . - . Parent=transcript:Os01t0103600-01 +### +1 irgsp gene 187545 188586 . + . ID=gene:Os01g0103650;biotype=protein_coding;description=Hypothetical gene. (Os01t0103650-00);gene_id=Os01g0103650;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 187545 188586 . + . ID=transcript:Os01t0103650-00;Parent=gene:Os01g0103650;biotype=protein_coding;transcript_id=Os01t0103650-00 +1 irgsp five_prime_UTR 187545 187546 . + . Parent=transcript:Os01t0103650-00 +1 irgsp exon 187545 188020 . + . Parent=transcript:Os01t0103650-00;Name=Os01t0103650-00.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103650-00.exon1;rank=1 +1 irgsp CDS 187547 187768 . + 0 ID=CDS:Os01t0103650-00;Parent=transcript:Os01t0103650-00;protein_id=Os01t0103650-00 +1 irgsp three_prime_UTR 187769 188020 . + . Parent=transcript:Os01t0103650-00 +1 irgsp exon 188060 188385 . + . Parent=transcript:Os01t0103650-00;Name=Os01t0103650-00.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103650-00.exon2;rank=2 +1 irgsp three_prime_UTR 188060 188385 . + . Parent=transcript:Os01t0103650-00 +1 irgsp exon 188455 188586 . + . Parent=transcript:Os01t0103650-00;Name=Os01t0103650-00.exon3;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103650-00.exon3;rank=3 +1 irgsp three_prime_UTR 188455 188586 . + . Parent=transcript:Os01t0103650-00 +### +1 irgsp gene 191037 196287 . + . ID=gene:Os01g0103700;biotype=protein_coding;description=Conserved hypothetical protein. (Os01t0103700-01);gene_id=Os01g0103700;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 191037 196287 . + . ID=transcript:Os01t0103700-01;Parent=gene:Os01g0103700;biotype=protein_coding;transcript_id=Os01t0103700-01 +1 irgsp exon 191037 191161 . + . Parent=transcript:Os01t0103700-01;Name=Os01t0103700-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103700-01.exon1;rank=1 +1 irgsp five_prime_UTR 191037 191161 . + . Parent=transcript:Os01t0103700-01 +1 irgsp five_prime_UTR 191625 191693 . + . Parent=transcript:Os01t0103700-01 +1 irgsp exon 191625 191705 . + . Parent=transcript:Os01t0103700-01;Name=Os01t0103700-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0103700-01.exon2;rank=2 +1 irgsp CDS 191694 191705 . + 0 ID=CDS:Os01t0103700-01;Parent=transcript:Os01t0103700-01;protein_id=Os01t0103700-01 +1 irgsp exon 192399 192506 . + . Parent=transcript:Os01t0103700-01;Name=Os01t0103700-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0103700-01.exon3;rank=3 +1 irgsp CDS 192399 192506 . + 0 ID=CDS:Os01t0103700-01;Parent=transcript:Os01t0103700-01;protein_id=Os01t0103700-01 +1 irgsp exon 192958 193161 . + . Parent=transcript:Os01t0103700-01;Name=Os01t0103700-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0103700-01.exon4;rank=4 +1 irgsp CDS 192958 193161 . + 0 ID=CDS:Os01t0103700-01;Parent=transcript:Os01t0103700-01;protein_id=Os01t0103700-01 +1 irgsp exon 193248 193356 . + . Parent=transcript:Os01t0103700-01;Name=Os01t0103700-01.exon5;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0103700-01.exon5;rank=5 +1 irgsp CDS 193248 193356 . + 0 ID=CDS:Os01t0103700-01;Parent=transcript:Os01t0103700-01;protein_id=Os01t0103700-01 +1 irgsp CDS 193434 193507 . + 2 ID=CDS:Os01t0103700-01;Parent=transcript:Os01t0103700-01;protein_id=Os01t0103700-01 +1 irgsp exon 193434 196287 . + . Parent=transcript:Os01t0103700-01;Name=Os01t0103700-01.exon6;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0103700-01.exon6;rank=6 +1 irgsp three_prime_UTR 193508 196287 . + . Parent=transcript:Os01t0103700-01 +### +1 irgsp gene 197647 200803 . + . ID=gene:Os01g0103800;Name=OsDW1-01g;biotype=protein_coding;description=Conserved hypothetical protein. (Os01t0103800-01);gene_id=Os01g0103800;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 197647 200803 . + . ID=transcript:Os01t0103800-01;Parent=gene:Os01g0103800;biotype=protein_coding;transcript_id=Os01t0103800-01 +1 irgsp exon 197647 197838 . + . Parent=transcript:Os01t0103800-01;Name=Os01t0103800-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0103800-01.exon1;rank=1 +1 irgsp five_prime_UTR 197647 197838 . + . Parent=transcript:Os01t0103800-01 +1 irgsp five_prime_UTR 198034 198129 . + . Parent=transcript:Os01t0103800-01 +1 irgsp exon 198034 198225 . + . Parent=transcript:Os01t0103800-01;Name=Os01t0103800-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0103800-01.exon2;rank=2 +1 irgsp CDS 198130 198225 . + 0 ID=CDS:Os01t0103800-01;Parent=transcript:Os01t0103800-01;protein_id=Os01t0103800-01 +1 irgsp exon 198830 200036 . + . Parent=transcript:Os01t0103800-01;Name=Os01t0103800-01.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0103800-01.exon3;rank=3 +1 irgsp CDS 198830 200036 . + 0 ID=CDS:Os01t0103800-01;Parent=transcript:Os01t0103800-01;protein_id=Os01t0103800-01 +1 irgsp CDS 200253 200479 . + 2 ID=CDS:Os01t0103800-01;Parent=transcript:Os01t0103800-01;protein_id=Os01t0103800-01 +1 irgsp exon 200253 200803 . + . Parent=transcript:Os01t0103800-01;Name=Os01t0103800-01.exon4;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0103800-01.exon4;rank=4 +1 irgsp three_prime_UTR 200480 200803 . + . Parent=transcript:Os01t0103800-01 +### +1 irgsp gene 201944 206202 . + . ID=gene:Os01g0103900;biotype=protein_coding;description=Polynucleotidyl transferase%2C Ribonuclease H fold domain containing protein. (Os01t0103900-01);gene_id=Os01g0103900;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 201944 206202 . + . ID=transcript:Os01t0103900-01;Parent=gene:Os01g0103900;biotype=protein_coding;transcript_id=Os01t0103900-01 +1 irgsp five_prime_UTR 201944 202041 . + . Parent=transcript:Os01t0103900-01 +1 irgsp exon 201944 202110 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0103900-01.exon1;rank=1 +1 irgsp CDS 202042 202110 . + 0 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 202252 202359 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0103900-01.exon2;rank=2 +1 irgsp CDS 202252 202359 . + 0 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 203007 203127 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0103900-01.exon3;rank=3 +1 irgsp CDS 203007 203127 . + 0 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 203302 203429 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0103900-01.exon4;rank=4 +1 irgsp CDS 203302 203429 . + 2 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 203511 203658 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon5;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0103900-01.exon5;rank=5 +1 irgsp CDS 203511 203658 . + 0 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 203760 203938 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0103900-01.exon6;rank=6 +1 irgsp CDS 203760 203938 . + 2 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 204203 204440 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon7;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0103900-01.exon7;rank=7 +1 irgsp CDS 204203 204440 . + 0 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 204543 204635 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon8;constitutive=1;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0103900-01.exon8;rank=8 +1 irgsp CDS 204543 204635 . + 2 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 204730 204875 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon9;constitutive=1;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0103900-01.exon9;rank=9 +1 irgsp CDS 204730 204875 . + 2 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 205042 205149 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon10;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0103900-01.exon10;rank=10 +1 irgsp CDS 205042 205149 . + 0 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 205290 205378 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon11;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0103900-01.exon11;rank=11 +1 irgsp CDS 205290 205378 . + 0 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp CDS 205534 205543 . + 1 ID=CDS:Os01t0103900-01;Parent=transcript:Os01t0103900-01;protein_id=Os01t0103900-01 +1 irgsp exon 205534 206202 . + . Parent=transcript:Os01t0103900-01;Name=Os01t0103900-01.exon12;constitutive=1;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0103900-01.exon12;rank=12 +1 irgsp three_prime_UTR 205544 206202 . + . Parent=transcript:Os01t0103900-01 +### +1 irgsp gene 206131 209606 . - . ID=gene:Os01g0104000;biotype=protein_coding;description=C-type lectin domain containing protein. (Os01t0104000-01)%3BSimilar to predicted protein. (Os01t0104000-02);gene_id=Os01g0104000;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 206131 209581 . - . ID=transcript:Os01t0104000-02;Parent=gene:Os01g0104000;biotype=protein_coding;transcript_id=Os01t0104000-02 +1 irgsp three_prime_UTR 206131 206449 . - . Parent=transcript:Os01t0104000-02 +1 irgsp exon 206131 207029 . - . Parent=transcript:Os01t0104000-02;Name=Os01t0104000-02.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0104000-02.exon4;rank=4 +1 irgsp CDS 206450 207029 . - 1 ID=CDS:Os01t0104000-02;Parent=transcript:Os01t0104000-02;protein_id=Os01t0104000-02 +1 irgsp exon 207706 208273 . - . Parent=transcript:Os01t0104000-02;Name=Os01t0104000-02.exon3;constitutive=0;ensembl_end_phase=2;ensembl_phase=1;exon_id=Os01t0104000-02.exon3;rank=3 +1 irgsp CDS 207706 208273 . - 2 ID=CDS:Os01t0104000-02;Parent=transcript:Os01t0104000-02;protein_id=Os01t0104000-02 +1 irgsp exon 208408 208836 . - . Parent=transcript:Os01t0104000-02;Name=Os01t0104000-01.exon2;constitutive=1;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0104000-01.exon2;rank=2 +1 irgsp CDS 208408 208836 . - 2 ID=CDS:Os01t0104000-02;Parent=transcript:Os01t0104000-02;protein_id=Os01t0104000-02 +1 irgsp CDS 209438 209525 . - 0 ID=CDS:Os01t0104000-02;Parent=transcript:Os01t0104000-02;protein_id=Os01t0104000-02 +1 irgsp exon 209438 209581 . - . Parent=transcript:Os01t0104000-02;Name=Os01t0104000-02.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0104000-02.exon1;rank=1 +1 irgsp five_prime_UTR 209526 209581 . - . Parent=transcript:Os01t0104000-02 +1 irgsp mRNA 206134 209606 . - . ID=transcript:Os01t0104000-01;Parent=gene:Os01g0104000;biotype=protein_coding;transcript_id=Os01t0104000-01 +1 irgsp three_prime_UTR 206134 206449 . - . Parent=transcript:Os01t0104000-01 +1 irgsp exon 206134 207029 . - . Parent=transcript:Os01t0104000-01;Name=Os01t0104000-01.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0104000-01.exon4;rank=4 +1 irgsp CDS 206450 207029 . - 1 ID=CDS:Os01t0104000-01;Parent=transcript:Os01t0104000-01;protein_id=Os01t0104000-01 +1 irgsp exon 207706 208276 . - . Parent=transcript:Os01t0104000-01;Name=Os01t0104000-01.exon3;constitutive=0;ensembl_end_phase=2;ensembl_phase=1;exon_id=Os01t0104000-01.exon3;rank=3 +1 irgsp CDS 207706 208276 . - 2 ID=CDS:Os01t0104000-01;Parent=transcript:Os01t0104000-01;protein_id=Os01t0104000-01 +1 irgsp exon 208408 208836 . - . Parent=transcript:Os01t0104000-01;Name=Os01t0104000-01.exon2;constitutive=1;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0104000-01.exon2;rank=2 +1 irgsp CDS 208408 208836 . - 2 ID=CDS:Os01t0104000-01;Parent=transcript:Os01t0104000-01;protein_id=Os01t0104000-01 +1 irgsp CDS 209438 209525 . - 0 ID=CDS:Os01t0104000-01;Parent=transcript:Os01t0104000-01;protein_id=Os01t0104000-01 +1 irgsp exon 209438 209606 . - . Parent=transcript:Os01t0104000-01;Name=Os01t0104000-01.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0104000-01.exon1;rank=1 +1 irgsp five_prime_UTR 209526 209606 . - . Parent=transcript:Os01t0104000-01 +### +1 irgsp gene 209771 214173 . + . ID=gene:Os01g0104100;Name=cold-inducible%2C cold-inducible zinc finger protein;biotype=protein_coding;description=Similar to protein binding / zinc ion binding. (Os01t0104100-01)%3BSimilar to protein binding / zinc ion binding. (Os01t0104100-02);gene_id=Os01g0104100;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 209771 214173 . + . ID=transcript:Os01t0104100-01;Parent=gene:Os01g0104100;biotype=protein_coding;transcript_id=Os01t0104100-01 +1 irgsp exon 209771 209896 . + . Parent=transcript:Os01t0104100-01;Name=Os01t0104100-01.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104100-01.exon1;rank=1 +1 irgsp CDS 209771 209896 . + 0 ID=CDS:Os01t0104100-01;Parent=transcript:Os01t0104100-01;protein_id=Os01t0104100-01 +1 irgsp exon 210244 210563 . + . Parent=transcript:Os01t0104100-01;Name=Os01t0104100-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104100-01.exon2;rank=2 +1 irgsp CDS 210244 210563 . + 0 ID=CDS:Os01t0104100-01;Parent=transcript:Os01t0104100-01;protein_id=Os01t0104100-01 +1 irgsp exon 210659 210890 . + . Parent=transcript:Os01t0104100-01;Name=Os01t0104100-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104100-01.exon3;rank=3 +1 irgsp CDS 210659 210890 . + 1 ID=CDS:Os01t0104100-01;Parent=transcript:Os01t0104100-01;protein_id=Os01t0104100-01 +1 irgsp exon 211015 211160 . + . Parent=transcript:Os01t0104100-01;Name=Os01t0104100-01.exon4;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104100-01.exon4;rank=4 +1 irgsp CDS 211015 211160 . + 0 ID=CDS:Os01t0104100-01;Parent=transcript:Os01t0104100-01;protein_id=Os01t0104100-01 +1 irgsp exon 212265 212352 . + . Parent=transcript:Os01t0104100-01;Name=Os01t0104100-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104100-01.exon5;rank=5 +1 irgsp CDS 212265 212352 . + 1 ID=CDS:Os01t0104100-01;Parent=transcript:Os01t0104100-01;protein_id=Os01t0104100-01 +1 irgsp exon 212433 212579 . + . Parent=transcript:Os01t0104100-01;Name=Os01t0104100-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104100-01.exon6;rank=6 +1 irgsp CDS 212433 212579 . + 0 ID=CDS:Os01t0104100-01;Parent=transcript:Os01t0104100-01;protein_id=Os01t0104100-01 +1 irgsp exon 213490 213639 . + . Parent=transcript:Os01t0104100-01;Name=Os01t0104100-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104100-01.exon7;rank=7 +1 irgsp CDS 213490 213639 . + 0 ID=CDS:Os01t0104100-01;Parent=transcript:Os01t0104100-01;protein_id=Os01t0104100-01 +1 irgsp CDS 213741 213788 . + 0 ID=CDS:Os01t0104100-01;Parent=transcript:Os01t0104100-01;protein_id=Os01t0104100-01 +1 irgsp exon 213741 214173 . + . Parent=transcript:Os01t0104100-01;Name=Os01t0104100-01.exon8;constitutive=0;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0104100-01.exon8;rank=8 +1 irgsp three_prime_UTR 213789 214173 . + . Parent=transcript:Os01t0104100-01 +1 irgsp mRNA 209794 214147 . + . ID=transcript:Os01t0104100-02;Parent=gene:Os01g0104100;biotype=protein_coding;transcript_id=Os01t0104100-02 +1 irgsp five_prime_UTR 209794 209794 . + . Parent=transcript:Os01t0104100-02 +1 irgsp exon 209794 209896 . + . Parent=transcript:Os01t0104100-02;Name=Os01t0104100-02.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0104100-02.exon1;rank=1 +1 irgsp CDS 209795 209896 . + 0 ID=CDS:Os01t0104100-02;Parent=transcript:Os01t0104100-02;protein_id=Os01t0104100-02 +1 irgsp exon 210244 210563 . + . Parent=transcript:Os01t0104100-02;Name=Os01t0104100-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104100-01.exon2;rank=2 +1 irgsp CDS 210244 210563 . + 0 ID=CDS:Os01t0104100-02;Parent=transcript:Os01t0104100-02;protein_id=Os01t0104100-02 +1 irgsp exon 210659 210890 . + . Parent=transcript:Os01t0104100-02;Name=Os01t0104100-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104100-01.exon3;rank=3 +1 irgsp CDS 210659 210890 . + 1 ID=CDS:Os01t0104100-02;Parent=transcript:Os01t0104100-02;protein_id=Os01t0104100-02 +1 irgsp exon 211015 211160 . + . Parent=transcript:Os01t0104100-02;Name=Os01t0104100-01.exon4;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104100-01.exon4;rank=4 +1 irgsp CDS 211015 211160 . + 0 ID=CDS:Os01t0104100-02;Parent=transcript:Os01t0104100-02;protein_id=Os01t0104100-02 +1 irgsp exon 212265 212352 . + . Parent=transcript:Os01t0104100-02;Name=Os01t0104100-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104100-01.exon5;rank=5 +1 irgsp CDS 212265 212352 . + 1 ID=CDS:Os01t0104100-02;Parent=transcript:Os01t0104100-02;protein_id=Os01t0104100-02 +1 irgsp exon 212433 212579 . + . Parent=transcript:Os01t0104100-02;Name=Os01t0104100-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104100-01.exon6;rank=6 +1 irgsp CDS 212433 212579 . + 0 ID=CDS:Os01t0104100-02;Parent=transcript:Os01t0104100-02;protein_id=Os01t0104100-02 +1 irgsp exon 213490 213639 . + . Parent=transcript:Os01t0104100-02;Name=Os01t0104100-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104100-01.exon7;rank=7 +1 irgsp CDS 213490 213639 . + 0 ID=CDS:Os01t0104100-02;Parent=transcript:Os01t0104100-02;protein_id=Os01t0104100-02 +1 irgsp CDS 213741 213788 . + 0 ID=CDS:Os01t0104100-02;Parent=transcript:Os01t0104100-02;protein_id=Os01t0104100-02 +1 irgsp exon 213741 214147 . + . Parent=transcript:Os01t0104100-02;Name=Os01t0104100-02.exon8;constitutive=0;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0104100-02.exon8;rank=8 +1 irgsp three_prime_UTR 213789 214147 . + . Parent=transcript:Os01t0104100-02 +### +1 irgsp gene 216212 217345 . + . ID=gene:Os01g0104200;Name=NAC DOMAIN-CONTAINING PROTEIN 16;biotype=protein_coding;description=No apical meristem (NAM) protein domain containing protein. (Os01t0104200-00);gene_id=Os01g0104200;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 216212 217345 . + . ID=transcript:Os01t0104200-00;Parent=gene:Os01g0104200;biotype=protein_coding;transcript_id=Os01t0104200-00 +1 irgsp exon 216212 216769 . + . Parent=transcript:Os01t0104200-00;Name=Os01t0104200-00.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104200-00.exon1;rank=1 +1 irgsp CDS 216212 216769 . + 0 ID=CDS:Os01t0104200-00;Parent=transcript:Os01t0104200-00;protein_id=Os01t0104200-00 +1 irgsp exon 216884 217345 . + . Parent=transcript:Os01t0104200-00;Name=Os01t0104200-00.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104200-00.exon2;rank=2 +1 irgsp CDS 216884 217345 . + 0 ID=CDS:Os01t0104200-00;Parent=transcript:Os01t0104200-00;protein_id=Os01t0104200-00 +### +1 irgsp gene 226897 229301 . + . ID=gene:Os01g0104400;biotype=protein_coding;description=Ricin B-related lectin domain containing protein. (Os01t0104400-01)%3BRicin B-related lectin domain containing protein. (Os01t0104400-02)%3BRicin B-related lectin domain containing protein. (Os01t0104400-03);gene_id=Os01g0104400;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 226897 229229 . + . ID=transcript:Os01t0104400-01;Parent=gene:Os01g0104400;biotype=protein_coding;transcript_id=Os01t0104400-01 +1 irgsp five_prime_UTR 226897 227181 . + . Parent=transcript:Os01t0104400-01 +1 irgsp exon 226897 227634 . + . Parent=transcript:Os01t0104400-01;Name=Os01t0104400-01.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0104400-01.exon1;rank=1 +1 irgsp CDS 227182 227634 . + 0 ID=CDS:Os01t0104400-01;Parent=transcript:Os01t0104400-01;protein_id=Os01t0104400-01 +1 irgsp exon 227742 227864 . + . Parent=transcript:Os01t0104400-01;Name=Os01t0104400-03.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104400-03.exon2;rank=2 +1 irgsp CDS 227742 227864 . + 0 ID=CDS:Os01t0104400-01;Parent=transcript:Os01t0104400-01;protein_id=Os01t0104400-01 +1 irgsp exon 228557 228785 . + . Parent=transcript:Os01t0104400-01;Name=Os01t0104400-03.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0104400-03.exon3;rank=3 +1 irgsp CDS 228557 228785 . + 0 ID=CDS:Os01t0104400-01;Parent=transcript:Os01t0104400-01;protein_id=Os01t0104400-01 +1 irgsp CDS 228930 228931 . + 2 ID=CDS:Os01t0104400-01;Parent=transcript:Os01t0104400-01;protein_id=Os01t0104400-01 +1 irgsp exon 228930 229229 . + . Parent=transcript:Os01t0104400-01;Name=Os01t0104400-01.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0104400-01.exon4;rank=4 +1 irgsp three_prime_UTR 228932 229229 . + . Parent=transcript:Os01t0104400-01 +1 irgsp mRNA 227139 229301 . + . ID=transcript:Os01t0104400-02;Parent=gene:Os01g0104400;biotype=protein_coding;transcript_id=Os01t0104400-02 +1 irgsp five_prime_UTR 227139 227181 . + . Parent=transcript:Os01t0104400-02 +1 irgsp exon 227139 227634 . + . Parent=transcript:Os01t0104400-02;Name=Os01t0104400-02.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0104400-02.exon1;rank=1 +1 irgsp CDS 227182 227634 . + 0 ID=CDS:Os01t0104400-02;Parent=transcript:Os01t0104400-02;protein_id=Os01t0104400-02 +1 irgsp exon 227742 227864 . + . Parent=transcript:Os01t0104400-02;Name=Os01t0104400-03.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104400-03.exon2;rank=2 +1 irgsp CDS 227742 227864 . + 0 ID=CDS:Os01t0104400-02;Parent=transcript:Os01t0104400-02;protein_id=Os01t0104400-02 +1 irgsp exon 228557 228785 . + . Parent=transcript:Os01t0104400-02;Name=Os01t0104400-03.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0104400-03.exon3;rank=3 +1 irgsp CDS 228557 228785 . + 0 ID=CDS:Os01t0104400-02;Parent=transcript:Os01t0104400-02;protein_id=Os01t0104400-02 +1 irgsp CDS 228930 228931 . + 2 ID=CDS:Os01t0104400-02;Parent=transcript:Os01t0104400-02;protein_id=Os01t0104400-02 +1 irgsp exon 228930 229301 . + . Parent=transcript:Os01t0104400-02;Name=Os01t0104400-02.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0104400-02.exon4;rank=4 +1 irgsp three_prime_UTR 228932 229301 . + . Parent=transcript:Os01t0104400-02 +1 irgsp mRNA 227179 229214 . + . ID=transcript:Os01t0104400-03;Parent=gene:Os01g0104400;biotype=protein_coding;transcript_id=Os01t0104400-03 +1 irgsp five_prime_UTR 227179 227181 . + . Parent=transcript:Os01t0104400-03 +1 irgsp exon 227179 227634 . + . Parent=transcript:Os01t0104400-03;Name=Os01t0104400-03.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0104400-03.exon1;rank=1 +1 irgsp CDS 227182 227634 . + 0 ID=CDS:Os01t0104400-03;Parent=transcript:Os01t0104400-03;protein_id=Os01t0104400-03 +1 irgsp exon 227742 227864 . + . Parent=transcript:Os01t0104400-03;Name=Os01t0104400-03.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104400-03.exon2;rank=2 +1 irgsp CDS 227742 227864 . + 0 ID=CDS:Os01t0104400-03;Parent=transcript:Os01t0104400-03;protein_id=Os01t0104400-03 +1 irgsp exon 228557 228785 . + . Parent=transcript:Os01t0104400-03;Name=Os01t0104400-03.exon3;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0104400-03.exon3;rank=3 +1 irgsp CDS 228557 228785 . + 0 ID=CDS:Os01t0104400-03;Parent=transcript:Os01t0104400-03;protein_id=Os01t0104400-03 +1 irgsp CDS 228930 228931 . + 2 ID=CDS:Os01t0104400-03;Parent=transcript:Os01t0104400-03;protein_id=Os01t0104400-03 +1 irgsp exon 228930 229214 . + . Parent=transcript:Os01t0104400-03;Name=Os01t0104400-03.exon4;constitutive=0;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0104400-03.exon4;rank=4 +1 irgsp three_prime_UTR 228932 229214 . + . Parent=transcript:Os01t0104400-03 +### +1 irgsp gene 241680 243440 . + . ID=gene:Os01g0104500;Name=NAC DOMAIN-CONTAINING PROTEIN 20;biotype=protein_coding;description=No apical meristem (NAM) protein domain containing protein. (Os01t0104500-01);gene_id=Os01g0104500;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 241680 243440 . + . ID=transcript:Os01t0104500-01;Parent=gene:Os01g0104500;biotype=protein_coding;transcript_id=Os01t0104500-01 +1 irgsp exon 241680 241702 . + . Parent=transcript:Os01t0104500-01;Name=Os01t0104500-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0104500-01.exon1;rank=1 +1 irgsp five_prime_UTR 241680 241702 . + . Parent=transcript:Os01t0104500-01 +1 irgsp five_prime_UTR 241866 241907 . + . Parent=transcript:Os01t0104500-01 +1 irgsp exon 241866 242091 . + . Parent=transcript:Os01t0104500-01;Name=Os01t0104500-01.exon2;constitutive=1;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0104500-01.exon2;rank=2 +1 irgsp CDS 241908 242091 . + 0 ID=CDS:Os01t0104500-01;Parent=transcript:Os01t0104500-01;protein_id=Os01t0104500-01 +1 irgsp CDS 242199 242977 . + 2 ID=CDS:Os01t0104500-01;Parent=transcript:Os01t0104500-01;protein_id=Os01t0104500-01 +1 irgsp exon 242199 243440 . + . Parent=transcript:Os01t0104500-01;Name=Os01t0104500-01.exon3;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0104500-01.exon3;rank=3 +1 irgsp three_prime_UTR 242978 243440 . + . Parent=transcript:Os01t0104500-01 +### +1 irgsp gene 248828 256872 . - . ID=gene:Os01g0104600;Name=DE-ETIOLATED1;biotype=protein_coding;description=Homolog of Arabidopsis DE-ETIOLATED1 (DET1)%2C Modulation of the ABA signaling pathway and ABA biosynthesis%2C Regulation of chlorophyll content (Os01t0104600-01)%3BSimilar to Light-mediated development protein DET1 (Deetiolated1 homolog) (tDET1) (High pigmentation protein 2) (Protein dark green). (Os01t0104600-02);gene_id=Os01g0104600;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 248828 256571 . - . ID=transcript:Os01t0104600-02;Parent=gene:Os01g0104600;biotype=protein_coding;transcript_id=Os01t0104600-02 +1 irgsp three_prime_UTR 248828 248970 . - . Parent=transcript:Os01t0104600-02 +1 irgsp exon 248828 249107 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon11;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0104600-01.exon11;rank=11 +1 irgsp CDS 248971 249107 . - 2 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 249369 249468 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon10;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0104600-01.exon10;rank=10 +1 irgsp CDS 249369 249468 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 249861 249956 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon9;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon9;rank=9 +1 irgsp CDS 249861 249956 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 250617 250781 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon8;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon8;rank=8 +1 irgsp CDS 250617 250781 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 250860 250940 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon7;rank=7 +1 irgsp CDS 250860 250940 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 251026 251082 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon6;rank=6 +1 irgsp CDS 251026 251082 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 251316 251384 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon5;rank=5 +1 irgsp CDS 251316 251384 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 251695 251790 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon4;rank=4 +1 irgsp CDS 251695 251790 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 255325 255553 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104600-01.exon3;rank=3 +1 irgsp CDS 255325 255553 . - 1 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 255674 256098 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104600-01.exon2;rank=2 +1 irgsp CDS 255674 256098 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp CDS 256361 256441 . - 0 ID=CDS:Os01t0104600-02;Parent=transcript:Os01t0104600-02;protein_id=Os01t0104600-02 +1 irgsp exon 256361 256571 . - . Parent=transcript:Os01t0104600-02;Name=Os01t0104600-02.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0104600-02.exon1;rank=1 +1 irgsp five_prime_UTR 256442 256571 . - . Parent=transcript:Os01t0104600-02 +1 irgsp mRNA 248828 256872 . - . ID=transcript:Os01t0104600-01;Parent=gene:Os01g0104600;biotype=protein_coding;transcript_id=Os01t0104600-01 +1 irgsp three_prime_UTR 248828 248970 . - . Parent=transcript:Os01t0104600-01 +1 irgsp exon 248828 249107 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon11;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0104600-01.exon11;rank=11 +1 irgsp CDS 248971 249107 . - 2 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 249369 249468 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon10;constitutive=1;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0104600-01.exon10;rank=10 +1 irgsp CDS 249369 249468 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 249861 249956 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon9;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon9;rank=9 +1 irgsp CDS 249861 249956 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 250617 250781 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon8;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon8;rank=8 +1 irgsp CDS 250617 250781 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 250860 250940 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon7;rank=7 +1 irgsp CDS 250860 250940 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 251026 251082 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon6;rank=6 +1 irgsp CDS 251026 251082 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 251316 251384 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon5;rank=5 +1 irgsp CDS 251316 251384 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 251695 251790 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104600-01.exon4;rank=4 +1 irgsp CDS 251695 251790 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 255325 255553 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104600-01.exon3;rank=3 +1 irgsp CDS 255325 255553 . - 1 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 255674 256098 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon2;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104600-01.exon2;rank=2 +1 irgsp CDS 255674 256098 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp CDS 256361 256441 . - 0 ID=CDS:Os01t0104600-01;Parent=transcript:Os01t0104600-01;protein_id=Os01t0104600-01 +1 irgsp exon 256361 256872 . - . Parent=transcript:Os01t0104600-01;Name=Os01t0104600-01.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0104600-01.exon1;rank=1 +1 irgsp five_prime_UTR 256442 256872 . - . Parent=transcript:Os01t0104600-01 +### +1 irgsp gene 261530 268145 . + . ID=gene:Os01g0104800;biotype=protein_coding;description=Sas10/Utp3 family protein. (Os01t0104800-01)%3BHypothetical conserved gene. (Os01t0104800-02);gene_id=Os01g0104800;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 261530 268145 . + . ID=transcript:Os01t0104800-01;Parent=gene:Os01g0104800;biotype=protein_coding;transcript_id=Os01t0104800-01 +1 irgsp five_prime_UTR 261530 261561 . + . Parent=transcript:Os01t0104800-01 +1 irgsp exon 261530 261661 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon1;constitutive=0;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0104800-01.exon1;rank=1 +1 irgsp CDS 261562 261661 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 261767 261805 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon2;constitutive=0;ensembl_end_phase=1;ensembl_phase=1;exon_id=Os01t0104800-01.exon2;rank=2 +1 irgsp CDS 261767 261805 . + 2 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 261895 261941 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon3;constitutive=0;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0104800-01.exon3;rank=3 +1 irgsp CDS 261895 261941 . + 2 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 262582 262681 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon4;constitutive=0;ensembl_end_phase=1;ensembl_phase=0;exon_id=Os01t0104800-01.exon4;rank=4 +1 irgsp CDS 262582 262681 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 262925 263181 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon5;constitutive=0;ensembl_end_phase=0;ensembl_phase=1;exon_id=Os01t0104800-01.exon5;rank=5 +1 irgsp CDS 262925 263181 . + 2 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 263525 263640 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon6;constitutive=0;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104800-01.exon6;rank=6 +1 irgsp CDS 263525 263640 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 264014 264098 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104800-01.exon7;rank=7 +1 irgsp CDS 264014 264098 . + 1 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 265236 265415 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon8;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104800-01.exon8;rank=8 +1 irgsp CDS 265236 265415 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 265506 265649 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon9;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104800-01.exon9;rank=9 +1 irgsp CDS 265506 265649 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 265740 265817 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon10;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104800-01.exon10;rank=10 +1 irgsp CDS 265740 265817 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 265909 266045 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon11;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104800-01.exon11;rank=11 +1 irgsp CDS 265909 266045 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 266138 266246 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon12;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104800-01.exon12;rank=12 +1 irgsp CDS 266138 266246 . + 1 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 267237 267514 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon13;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104800-01.exon13;rank=13 +1 irgsp CDS 267237 267514 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 267591 267657 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon14;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104800-01.exon14;rank=14 +1 irgsp CDS 267591 267657 . + 1 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 267734 267802 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon15;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104800-01.exon15;rank=15 +1 irgsp CDS 267734 267802 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp CDS 267880 268011 . + 0 ID=CDS:Os01t0104800-01;Parent=transcript:Os01t0104800-01;protein_id=Os01t0104800-01 +1 irgsp exon 267880 268145 . + . Parent=transcript:Os01t0104800-01;Name=Os01t0104800-01.exon16;constitutive=0;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0104800-01.exon16;rank=16 +1 irgsp three_prime_UTR 268012 268145 . + . Parent=transcript:Os01t0104800-01 +1 irgsp mRNA 263523 268120 . + . ID=transcript:Os01t0104800-02;Parent=gene:Os01g0104800;biotype=protein_coding;transcript_id=Os01t0104800-02 +1 irgsp five_prime_UTR 263523 263524 . + . Parent=transcript:Os01t0104800-02 +1 irgsp exon 263523 263640 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-02.exon1;constitutive=0;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0104800-02.exon1;rank=1 +1 irgsp CDS 263525 263640 . + 0 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 264014 264098 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104800-01.exon7;rank=2 +1 irgsp CDS 264014 264098 . + 1 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 265236 265415 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon8;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104800-01.exon8;rank=3 +1 irgsp CDS 265236 265415 . + 0 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 265506 265649 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon9;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104800-01.exon9;rank=4 +1 irgsp CDS 265506 265649 . + 0 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 265740 265817 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon10;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104800-01.exon10;rank=5 +1 irgsp CDS 265740 265817 . + 0 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 265909 266045 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon11;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104800-01.exon11;rank=6 +1 irgsp CDS 265909 266045 . + 0 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 266138 266246 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon12;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104800-01.exon12;rank=7 +1 irgsp CDS 266138 266246 . + 1 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 267237 267514 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon13;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0104800-01.exon13;rank=8 +1 irgsp CDS 267237 267514 . + 0 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 267591 267657 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon14;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0104800-01.exon14;rank=9 +1 irgsp CDS 267591 267657 . + 1 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 267734 267802 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-01.exon15;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0104800-01.exon15;rank=10 +1 irgsp CDS 267734 267802 . + 0 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp CDS 267880 268011 . + 0 ID=CDS:Os01t0104800-02;Parent=transcript:Os01t0104800-02;protein_id=Os01t0104800-02 +1 irgsp exon 267880 268120 . + . Parent=transcript:Os01t0104800-02;Name=Os01t0104800-02.exon11;constitutive=0;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0104800-02.exon11;rank=11 +1 irgsp three_prime_UTR 268012 268120 . + . Parent=transcript:Os01t0104800-02 +### +1 irgsp gene 270179 275084 . - . ID=gene:Os01g0104900;biotype=protein_coding;description=Transferase family protein. (Os01t0104900-01)%3BHypothetical conserved gene. (Os01t0104900-02);gene_id=Os01g0104900;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 270179 275084 . - . ID=transcript:Os01t0104900-01;Parent=gene:Os01g0104900;biotype=protein_coding;transcript_id=Os01t0104900-01 +1 irgsp three_prime_UTR 270179 270355 . - . Parent=transcript:Os01t0104900-01 +1 irgsp exon 270179 271333 . - . Parent=transcript:Os01t0104900-01;Name=Os01t0104900-01.exon2;constitutive=0;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0104900-01.exon2;rank=2 +1 irgsp CDS 270356 271333 . - 0 ID=CDS:Os01t0104900-01;Parent=transcript:Os01t0104900-01;protein_id=Os01t0104900-01 +1 irgsp CDS 274529 274957 . - 0 ID=CDS:Os01t0104900-01;Parent=transcript:Os01t0104900-01;protein_id=Os01t0104900-01 +1 irgsp exon 274529 275084 . - . Parent=transcript:Os01t0104900-01;Name=Os01t0104900-01.exon1;constitutive=0;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0104900-01.exon1;rank=1 +1 irgsp five_prime_UTR 274958 275084 . - . Parent=transcript:Os01t0104900-01 +1 irgsp mRNA 270250 271518 . - . ID=transcript:Os01t0104900-02;Parent=gene:Os01g0104900;biotype=protein_coding;transcript_id=Os01t0104900-02 +1 irgsp three_prime_UTR 270250 270355 . - . Parent=transcript:Os01t0104900-02 +1 irgsp exon 270250 271333 . - . Parent=transcript:Os01t0104900-02;Name=Os01t0104900-02.exon2;constitutive=0;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0104900-02.exon2;rank=2 +1 irgsp CDS 270356 271309 . - 0 ID=CDS:Os01t0104900-02;Parent=transcript:Os01t0104900-02;protein_id=Os01t0104900-02 +1 irgsp five_prime_UTR 271310 271333 . - . Parent=transcript:Os01t0104900-02 +1 irgsp exon 271457 271518 . - . Parent=transcript:Os01t0104900-02;Name=Os01t0104900-02.exon1;constitutive=0;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0104900-02.exon1;rank=1 +1 irgsp five_prime_UTR 271457 271518 . - . Parent=transcript:Os01t0104900-02 +### +1 irgsp gene 284762 291892 . - . ID=gene:Os01g0105300;biotype=protein_coding;description=Similar to HAT family dimerisation domain containing protein%2C expressed. (Os01t0105300-01);gene_id=Os01g0105300;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 284762 291892 . - . ID=transcript:Os01t0105300-01;Parent=gene:Os01g0105300;biotype=protein_coding;transcript_id=Os01t0105300-01 +1 irgsp three_prime_UTR 284762 284930 . - . Parent=transcript:Os01t0105300-01 +1 irgsp exon 284762 287047 . - . Parent=transcript:Os01t0105300-01;Name=Os01t0105300-01.exon5;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105300-01.exon5;rank=5 +1 irgsp CDS 284931 285020 . - 0 ID=CDS:Os01t0105300-01;Parent=transcript:Os01t0105300-01;protein_id=Os01t0105300-01 +1 irgsp five_prime_UTR 285021 287047 . - . Parent=transcript:Os01t0105300-01 +1 irgsp exon 291398 291436 . - . Parent=transcript:Os01t0105300-01;Name=Os01t0105300-01.exon4;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105300-01.exon4;rank=4 +1 irgsp five_prime_UTR 291398 291436 . - . Parent=transcript:Os01t0105300-01 +1 irgsp exon 291520 291534 . - . Parent=transcript:Os01t0105300-01;Name=Os01t0105300-01.exon3;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105300-01.exon3;rank=3 +1 irgsp five_prime_UTR 291520 291534 . - . Parent=transcript:Os01t0105300-01 +1 irgsp exon 291678 291738 . - . Parent=transcript:Os01t0105300-01;Name=Os01t0105300-01.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105300-01.exon2;rank=2 +1 irgsp five_prime_UTR 291678 291738 . - . Parent=transcript:Os01t0105300-01 +1 irgsp exon 291838 291892 . - . Parent=transcript:Os01t0105300-01;Name=Os01t0105300-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105300-01.exon1;rank=1 +1 irgsp five_prime_UTR 291838 291892 . - . Parent=transcript:Os01t0105300-01 +### +1 irgsp gene 288372 292296 . + . ID=gene:Os01g0105400;biotype=protein_coding;description=Similar to Kinesin heavy chain. (Os01t0105400-01);gene_id=Os01g0105400;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 288372 292296 . + . ID=transcript:Os01t0105400-01;Parent=gene:Os01g0105400;biotype=protein_coding;transcript_id=Os01t0105400-01 +1 irgsp exon 288372 288846 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105400-01.exon1;rank=1 +1 irgsp five_prime_UTR 288372 288846 . + . Parent=transcript:Os01t0105400-01 +1 irgsp exon 288950 289116 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105400-01.exon2;rank=2 +1 irgsp five_prime_UTR 288950 289116 . + . Parent=transcript:Os01t0105400-01 +1 irgsp exon 289202 289572 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon3;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105400-01.exon3;rank=3 +1 irgsp five_prime_UTR 289202 289572 . + . Parent=transcript:Os01t0105400-01 +1 irgsp exon 289661 289830 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon4;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105400-01.exon4;rank=4 +1 irgsp five_prime_UTR 289661 289830 . + . Parent=transcript:Os01t0105400-01 +1 irgsp five_prime_UTR 290395 290432 . + . Parent=transcript:Os01t0105400-01 +1 irgsp exon 290395 290512 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon5;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0105400-01.exon5;rank=5 +1 irgsp CDS 290433 290512 . + 0 ID=CDS:Os01t0105400-01;Parent=transcript:Os01t0105400-01;protein_id=Os01t0105400-01 +1 irgsp CDS 291372 291558 . + 1 ID=CDS:Os01t0105400-01;Parent=transcript:Os01t0105400-01;protein_id=Os01t0105400-01 +1 irgsp exon 291372 291574 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon6;constitutive=1;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0105400-01.exon6;rank=6 +1 irgsp three_prime_UTR 291559 291574 . + . Parent=transcript:Os01t0105400-01 +1 irgsp exon 291648 291779 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon7;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105400-01.exon7;rank=7 +1 irgsp three_prime_UTR 291648 291779 . + . Parent=transcript:Os01t0105400-01 +1 irgsp exon 291859 291948 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon8;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105400-01.exon8;rank=8 +1 irgsp three_prime_UTR 291859 291948 . + . Parent=transcript:Os01t0105400-01 +1 irgsp exon 292073 292296 . + . Parent=transcript:Os01t0105400-01;Name=Os01t0105400-01.exon9;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105400-01.exon9;rank=9 +1 irgsp three_prime_UTR 292073 292296 . + . Parent=transcript:Os01t0105400-01 +### +1 irgsp gene 303233 306736 . + . ID=gene:Os01g0105700;Name=basic helix-loop-helix protein 071;biotype=protein_coding;description=Basic helix-loop-helix dimerisation region bHLH domain containing protein. (Os01t0105700-01);gene_id=Os01g0105700;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 303233 306736 . + . ID=transcript:Os01t0105700-01;Parent=gene:Os01g0105700;biotype=protein_coding;transcript_id=Os01t0105700-01 +1 irgsp five_prime_UTR 303233 303328 . + . Parent=transcript:Os01t0105700-01 +1 irgsp exon 303233 303471 . + . Parent=transcript:Os01t0105700-01;Name=Os01t0105700-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0105700-01.exon1;rank=1 +1 irgsp CDS 303329 303471 . + 0 ID=CDS:Os01t0105700-01;Parent=transcript:Os01t0105700-01;protein_id=Os01t0105700-01 +1 irgsp exon 303981 304509 . + . Parent=transcript:Os01t0105700-01;Name=Os01t0105700-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0105700-01.exon2;rank=2 +1 irgsp CDS 303981 304509 . + 1 ID=CDS:Os01t0105700-01;Parent=transcript:Os01t0105700-01;protein_id=Os01t0105700-01 +1 irgsp exon 305572 305718 . + . Parent=transcript:Os01t0105700-01;Name=Os01t0105700-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0105700-01.exon3;rank=3 +1 irgsp CDS 305572 305718 . + 0 ID=CDS:Os01t0105700-01;Parent=transcript:Os01t0105700-01;protein_id=Os01t0105700-01 +1 irgsp exon 305834 305899 . + . Parent=transcript:Os01t0105700-01;Name=Os01t0105700-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0105700-01.exon4;rank=4 +1 irgsp CDS 305834 305899 . + 0 ID=CDS:Os01t0105700-01;Parent=transcript:Os01t0105700-01;protein_id=Os01t0105700-01 +1 irgsp exon 305993 306058 . + . Parent=transcript:Os01t0105700-01;Name=Os01t0105700-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0105700-01.exon5;rank=5 +1 irgsp CDS 305993 306058 . + 0 ID=CDS:Os01t0105700-01;Parent=transcript:Os01t0105700-01;protein_id=Os01t0105700-01 +1 irgsp exon 306171 306245 . + . Parent=transcript:Os01t0105700-01;Name=Os01t0105700-01.exon6;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0105700-01.exon6;rank=6 +1 irgsp CDS 306171 306245 . + 0 ID=CDS:Os01t0105700-01;Parent=transcript:Os01t0105700-01;protein_id=Os01t0105700-01 +1 irgsp CDS 306353 306493 . + 0 ID=CDS:Os01t0105700-01;Parent=transcript:Os01t0105700-01;protein_id=Os01t0105700-01 +1 irgsp exon 306353 306736 . + . Parent=transcript:Os01t0105700-01;Name=Os01t0105700-01.exon7;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0105700-01.exon7;rank=7 +1 irgsp three_prime_UTR 306494 306736 . + . Parent=transcript:Os01t0105700-01 +### +1 irgsp gene 306871 308842 . - . ID=gene:Os01g0105800;Name=IRON-SULFUR CLUSTER PROTEIN 9;biotype=protein_coding;description=Similar to Iron sulfur assembly protein 1. (Os01t0105800-01);gene_id=Os01g0105800;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 306871 308842 . - . ID=transcript:Os01t0105800-01;Parent=gene:Os01g0105800;biotype=protein_coding;transcript_id=Os01t0105800-01 +1 irgsp three_prime_UTR 306871 307123 . - . Parent=transcript:Os01t0105800-01 +1 irgsp exon 306871 307217 . - . Parent=transcript:Os01t0105800-01;Name=Os01t0105800-01.exon4;constitutive=1;ensembl_end_phase=-1;ensembl_phase=2;exon_id=Os01t0105800-01.exon4;rank=4 +1 irgsp CDS 307124 307217 . - 1 ID=CDS:Os01t0105800-01;Parent=transcript:Os01t0105800-01;protein_id=Os01t0105800-01 +1 irgsp exon 307296 307413 . - . Parent=transcript:Os01t0105800-01;Name=Os01t0105800-01.exon3;constitutive=1;ensembl_end_phase=2;ensembl_phase=1;exon_id=Os01t0105800-01.exon3;rank=3 +1 irgsp CDS 307296 307413 . - 2 ID=CDS:Os01t0105800-01;Parent=transcript:Os01t0105800-01;protein_id=Os01t0105800-01 +1 irgsp CDS 308397 308601 . - 0 ID=CDS:Os01t0105800-01;Parent=transcript:Os01t0105800-01;protein_id=Os01t0105800-01 +1 irgsp exon 308397 308626 . - . Parent=transcript:Os01t0105800-01;Name=Os01t0105800-01.exon2;constitutive=1;ensembl_end_phase=1;ensembl_phase=-1;exon_id=Os01t0105800-01.exon2;rank=2 +1 irgsp five_prime_UTR 308602 308626 . - . Parent=transcript:Os01t0105800-01 +1 irgsp exon 308703 308842 . - . Parent=transcript:Os01t0105800-01;Name=Os01t0105800-01.exon1;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=Os01t0105800-01.exon1;rank=1 +1 irgsp five_prime_UTR 308703 308842 . - . Parent=transcript:Os01t0105800-01 +### +1 irgsp gene 309520 313170 . - . ID=gene:Os01g0105900;biotype=protein_coding;description=Carbohydrate/purine kinase domain containing protein. (Os01t0105900-01);gene_id=Os01g0105900;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 309520 313170 . - . ID=transcript:Os01t0105900-01;Parent=gene:Os01g0105900;biotype=protein_coding;transcript_id=Os01t0105900-01 +1 irgsp three_prime_UTR 309520 309821 . - . Parent=transcript:Os01t0105900-01 +1 irgsp exon 309520 310070 . - . Parent=transcript:Os01t0105900-01;Name=Os01t0105900-01.exon8;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0105900-01.exon8;rank=8 +1 irgsp CDS 309822 310070 . - 0 ID=CDS:Os01t0105900-01;Parent=transcript:Os01t0105900-01;protein_id=Os01t0105900-01 +1 irgsp exon 310256 310367 . - . Parent=transcript:Os01t0105900-01;Name=Os01t0105900-01.exon7;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0105900-01.exon7;rank=7 +1 irgsp CDS 310256 310367 . - 1 ID=CDS:Os01t0105900-01;Parent=transcript:Os01t0105900-01;protein_id=Os01t0105900-01 +1 irgsp exon 310455 310552 . - . Parent=transcript:Os01t0105900-01;Name=Os01t0105900-01.exon6;constitutive=1;ensembl_end_phase=2;ensembl_phase=0;exon_id=Os01t0105900-01.exon6;rank=6 +1 irgsp CDS 310455 310552 . - 0 ID=CDS:Os01t0105900-01;Parent=transcript:Os01t0105900-01;protein_id=Os01t0105900-01 +1 irgsp exon 310632 310739 . - . Parent=transcript:Os01t0105900-01;Name=Os01t0105900-01.exon5;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0105900-01.exon5;rank=5 +1 irgsp CDS 310632 310739 . - 0 ID=CDS:Os01t0105900-01;Parent=transcript:Os01t0105900-01;protein_id=Os01t0105900-01 +1 irgsp exon 310880 310918 . - . Parent=transcript:Os01t0105900-01;Name=Os01t0105900-01.exon4;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0105900-01.exon4;rank=4 +1 irgsp CDS 310880 310918 . - 0 ID=CDS:Os01t0105900-01;Parent=transcript:Os01t0105900-01;protein_id=Os01t0105900-01 +1 irgsp exon 311002 311073 . - . Parent=transcript:Os01t0105900-01;Name=Os01t0105900-01.exon3;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0105900-01.exon3;rank=3 +1 irgsp CDS 311002 311073 . - 0 ID=CDS:Os01t0105900-01;Parent=transcript:Os01t0105900-01;protein_id=Os01t0105900-01 +1 irgsp exon 311163 311426 . - . Parent=transcript:Os01t0105900-01;Name=Os01t0105900-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=0;exon_id=Os01t0105900-01.exon2;rank=2 +1 irgsp CDS 311163 311426 . - 0 ID=CDS:Os01t0105900-01;Parent=transcript:Os01t0105900-01;protein_id=Os01t0105900-01 +1 irgsp CDS 312867 313064 . - 0 ID=CDS:Os01t0105900-01;Parent=transcript:Os01t0105900-01;protein_id=Os01t0105900-01 +1 irgsp exon 312867 313170 . - . Parent=transcript:Os01t0105900-01;Name=Os01t0105900-01.exon1;constitutive=1;ensembl_end_phase=0;ensembl_phase=-1;exon_id=Os01t0105900-01.exon1;rank=1 +1 irgsp five_prime_UTR 313065 313170 . - . Parent=transcript:Os01t0105900-01 +### +1 irgsp gene 319754 322205 . + . ID=gene:Os01g0106200;biotype=protein_coding;description=Similar to RER1A protein (AtRER1A). (Os01t0106200-01);gene_id=Os01g0106200;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 319754 322205 . + . ID=transcript:Os01t0106200-01;Parent=gene:Os01g0106200;biotype=protein_coding;transcript_id=Os01t0106200-01 +1 irgsp five_prime_UTR 319754 319874 . + . Parent=transcript:Os01t0106200-01 +1 irgsp exon 319754 320236 . + . Parent=transcript:Os01t0106200-01;Name=Os01t0106200-01.exon1;constitutive=1;ensembl_end_phase=2;ensembl_phase=-1;exon_id=Os01t0106200-01.exon1;rank=1 +1 irgsp CDS 319875 320236 . + 0 ID=CDS:Os01t0106200-01;Parent=transcript:Os01t0106200-01;protein_id=Os01t0106200-01 +1 irgsp exon 321468 321648 . + . Parent=transcript:Os01t0106200-01;Name=Os01t0106200-01.exon2;constitutive=1;ensembl_end_phase=0;ensembl_phase=2;exon_id=Os01t0106200-01.exon2;rank=2 +1 irgsp CDS 321468 321648 . + 1 ID=CDS:Os01t0106200-01;Parent=transcript:Os01t0106200-01;protein_id=Os01t0106200-01 +1 irgsp CDS 321928 321975 . + 0 ID=CDS:Os01t0106200-01;Parent=transcript:Os01t0106200-01;protein_id=Os01t0106200-01 +1 irgsp exon 321928 322205 . + . Parent=transcript:Os01t0106200-01;Name=Os01t0106200-01.exon3;constitutive=1;ensembl_end_phase=-1;ensembl_phase=0;exon_id=Os01t0106200-01.exon3;rank=3 +1 irgsp three_prime_UTR 321976 322205 . + . Parent=transcript:Os01t0106200-01 +### +1 irgsp gene 322591 323923 . - . ID=gene:Os01g0106300;biotype=protein_coding;description=Similar to Isoflavone reductase homolog IRL (EC 1.3.1.-). (Os01t0106300-01);gene_id=Os01g0106300;logic_name=irgspv1.0-20170804-genes +1 irgsp mRNA 322591 323923 . - . ID=transcript:Os01t0106300-01;Parent=gene:Os01g0106300;biotype=protein_coding;transcript_id=Os01t0106300-01 +1 irgsp three_prime_UTR 322591 322809 . - . Parent=transcript:Os01t0106300-01 +1 irgsp exon 322591 322973 . - . Parent=transcript:Os01t0106300-01;Name=Os01t0106300-01.exon2;constitutive=1;ensembl_end_phase=-1;ensembl_phase=1;exon_id=Os01t0106300-01.exon2;rank=2 diff --git a/src/agat/agat_convert_sp_gff2tsv/test_data/agat_convert_sp_gff2tsv_1.tsv b/src/agat/agat_convert_sp_gff2tsv/test_data/agat_convert_sp_gff2tsv_1.tsv new file mode 100644 index 00000000..b30ae271 --- /dev/null +++ b/src/agat/agat_convert_sp_gff2tsv/test_data/agat_convert_sp_gff2tsv_1.tsv @@ -0,0 +1,881 @@ +seq_id source_tag primary_tag start end score strand frame Alias biotype constitutive description ensembl_end_phase ensembl_phase exon_id gene_id ID logic_name Name Parent protein_id rank transcript_id +1 irgsp repeat_region 2000 2100 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A fakeRepeat1 N/A N/A N/A N/A N/A N/A +1 irgsp gene 2983 10815 . 1 . N/A protein_coding N/A RabGAP/TBC domain containing protein. (Os01t0100100-01) N/A N/A N/A Os01g0100100 gene:Os01g0100100 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 2983 10815 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100100-01 N/A N/A gene:Os01g0100100 N/A N/A Os01t0100100-01 +1 irgsp exon 2983 3268 . 1 . N/A N/A 1 N/A -1 -1 Os01t0100100-01.exon1 N/A Os01t0100100-01.exon1 N/A Os01t0100100-01.exon1 transcript:Os01t0100100-01 N/A 1 N/A +1 irgsp exon 3354 3616 . 1 . N/A N/A 1 N/A 0 -1 Os01t0100100-01.exon2 N/A Os01t0100100-01.exon2 N/A Os01t0100100-01.exon2 transcript:Os01t0100100-01 N/A 2 N/A +1 irgsp exon 4357 4455 . 1 . N/A N/A 1 N/A 0 0 Os01t0100100-01.exon3 N/A Os01t0100100-01.exon3 N/A Os01t0100100-01.exon3 transcript:Os01t0100100-01 N/A 3 N/A +1 irgsp exon 5457 5560 . 1 . N/A N/A 1 N/A 2 0 Os01t0100100-01.exon4 N/A Os01t0100100-01.exon4 N/A Os01t0100100-01.exon4 transcript:Os01t0100100-01 N/A 4 N/A +1 irgsp exon 7136 7944 . 1 . N/A N/A 1 N/A 1 2 Os01t0100100-01.exon5 N/A Os01t0100100-01.exon5 N/A Os01t0100100-01.exon5 transcript:Os01t0100100-01 N/A 5 N/A +1 irgsp exon 8028 8150 . 1 . N/A N/A 1 N/A 1 1 Os01t0100100-01.exon6 N/A Os01t0100100-01.exon6 N/A Os01t0100100-01.exon6 transcript:Os01t0100100-01 N/A 6 N/A +1 irgsp exon 8232 8320 . 1 . N/A N/A 1 N/A 0 1 Os01t0100100-01.exon7 N/A Os01t0100100-01.exon7 N/A Os01t0100100-01.exon7 transcript:Os01t0100100-01 N/A 7 N/A +1 irgsp exon 8408 8608 . 1 . N/A N/A 1 N/A 0 0 Os01t0100100-01.exon8 N/A Os01t0100100-01.exon8 N/A Os01t0100100-01.exon8 transcript:Os01t0100100-01 N/A 8 N/A +1 irgsp exon 9210 9615 . 1 . N/A N/A 1 N/A 1 0 Os01t0100100-01.exon9 N/A Os01t0100100-01.exon9 N/A Os01t0100100-01.exon9 transcript:Os01t0100100-01 N/A 9 N/A +1 irgsp exon 10102 10187 . 1 . N/A N/A 1 N/A 0 1 Os01t0100100-01.exon10 N/A Os01t0100100-01.exon10 N/A Os01t0100100-01.exon10 transcript:Os01t0100100-01 N/A 10 N/A +1 irgsp exon 10274 10430 . 1 . N/A N/A 1 N/A -1 0 Os01t0100100-01.exon11 N/A Os01t0100100-01.exon11 N/A Os01t0100100-01.exon11 transcript:Os01t0100100-01 N/A 11 N/A +1 irgsp exon 10504 10815 . 1 . N/A N/A 1 N/A -1 -1 Os01t0100100-01.exon12 N/A Os01t0100100-01.exon12 N/A Os01t0100100-01.exon12 transcript:Os01t0100100-01 N/A 12 N/A +1 irgsp CDS 3449 3616 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 4357 4455 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 5457 5560 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 7136 7944 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 8028 8150 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 8232 8320 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 8408 8608 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 9210 9615 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 10102 10187 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp CDS 10274 10297 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100100-01 N/A N/A transcript:Os01t0100100-01 Os01t0100100-01 N/A N/A +1 irgsp five_prime_UTR 2983 3268 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-1 N/A N/A transcript:Os01t0100100-01 N/A N/A N/A +1 irgsp five_prime_UTR 3354 3448 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-2 N/A N/A transcript:Os01t0100100-01 N/A N/A N/A +1 irgsp three_prime_UTR 10298 10430 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-1 N/A N/A transcript:Os01t0100100-01 N/A N/A N/A +1 irgsp three_prime_UTR 10504 10815 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-2 N/A N/A transcript:Os01t0100100-01 N/A N/A N/A +1 irgsp gene 11218 12435 . 1 . N/A protein_coding N/A Conserved hypothetical protein. (Os01t0100200-01) N/A N/A N/A Os01g0100200 gene:Os01g0100200 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 11218 12435 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100200-01 N/A N/A gene:Os01g0100200 N/A N/A Os01t0100200-01 +1 irgsp exon 11218 12060 . 1 . N/A N/A 1 N/A 2 -1 Os01t0100200-01.exon1 N/A Os01t0100200-01.exon1 N/A Os01t0100200-01.exon1 transcript:Os01t0100200-01 N/A 1 N/A +1 irgsp exon 12152 12435 . 1 . N/A N/A 1 N/A -1 2 Os01t0100200-01.exon2 N/A Os01t0100200-01.exon2 N/A Os01t0100200-01.exon2 transcript:Os01t0100200-01 N/A 2 N/A +1 irgsp CDS 11798 12060 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100200-01 N/A N/A transcript:Os01t0100200-01 Os01t0100200-01 N/A N/A +1 irgsp CDS 12152 12317 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100200-01 N/A N/A transcript:Os01t0100200-01 Os01t0100200-01 N/A N/A +1 irgsp five_prime_UTR 11218 11797 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-3 N/A N/A transcript:Os01t0100200-01 N/A N/A N/A +1 irgsp three_prime_UTR 12318 12435 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-3 N/A N/A transcript:Os01t0100200-01 N/A N/A N/A +1 irgsp gene 11372 12284 . -1 . N/A protein_coding N/A Cytochrome P450 domain containing protein. (Os01t0100300-00) N/A N/A N/A Os01g0100300 gene:Os01g0100300 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 11372 12284 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100300-00 N/A N/A gene:Os01g0100300 N/A N/A Os01t0100300-00 +1 irgsp exon 11372 12042 . -1 . N/A N/A 1 N/A 0 1 Os01t0100300-00.exon2 N/A Os01t0100300-00.exon2 N/A Os01t0100300-00.exon2 transcript:Os01t0100300-00 N/A 2 N/A +1 irgsp exon 12146 12284 . -1 . N/A N/A 1 N/A 1 0 Os01t0100300-00.exon1 N/A Os01t0100300-00.exon1 N/A Os01t0100300-00.exon1 transcript:Os01t0100300-00 N/A 1 N/A +1 irgsp CDS 11372 12042 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100300-00 N/A N/A transcript:Os01t0100300-00 Os01t0100300-00 N/A N/A +1 irgsp CDS 12146 12284 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100300-00 N/A N/A transcript:Os01t0100300-00 Os01t0100300-00 N/A N/A +1 irgsp gene 12721 15685 . 1 . N/A protein_coding N/A Similar to Pectinesterase-like protein. (Os01t0100400-01) N/A N/A N/A Os01g0100400 gene:Os01g0100400 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 12721 15685 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100400-01 N/A N/A gene:Os01g0100400 N/A N/A Os01t0100400-01 +1 irgsp exon 12721 13813 . 1 . N/A N/A 1 N/A 2 -1 Os01t0100400-01.exon1 N/A Os01t0100400-01.exon1 N/A Os01t0100400-01.exon1 transcript:Os01t0100400-01 N/A 1 N/A +1 irgsp exon 13906 14271 . 1 . N/A N/A 1 N/A 2 2 Os01t0100400-01.exon2 N/A Os01t0100400-01.exon2 N/A Os01t0100400-01.exon2 transcript:Os01t0100400-01 N/A 2 N/A +1 irgsp exon 14359 14437 . 1 . N/A N/A 1 N/A 0 2 Os01t0100400-01.exon3 N/A Os01t0100400-01.exon3 N/A Os01t0100400-01.exon3 transcript:Os01t0100400-01 N/A 3 N/A +1 irgsp exon 14969 15171 . 1 . N/A N/A 1 N/A 2 0 Os01t0100400-01.exon4 N/A Os01t0100400-01.exon4 N/A Os01t0100400-01.exon4 transcript:Os01t0100400-01 N/A 4 N/A +1 irgsp exon 15266 15685 . 1 . N/A N/A 1 N/A -1 2 Os01t0100400-01.exon5 N/A Os01t0100400-01.exon5 N/A Os01t0100400-01.exon5 transcript:Os01t0100400-01 N/A 5 N/A +1 irgsp CDS 12774 13813 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100400-01 N/A N/A transcript:Os01t0100400-01 Os01t0100400-01 N/A N/A +1 irgsp CDS 13906 14271 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100400-01 N/A N/A transcript:Os01t0100400-01 Os01t0100400-01 N/A N/A +1 irgsp CDS 14359 14437 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100400-01 N/A N/A transcript:Os01t0100400-01 Os01t0100400-01 N/A N/A +1 irgsp CDS 14969 15171 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100400-01 N/A N/A transcript:Os01t0100400-01 Os01t0100400-01 N/A N/A +1 irgsp CDS 15266 15359 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100400-01 N/A N/A transcript:Os01t0100400-01 Os01t0100400-01 N/A N/A +1 irgsp five_prime_UTR 12721 12773 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-4 N/A N/A transcript:Os01t0100400-01 N/A N/A N/A +1 irgsp three_prime_UTR 15360 15685 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-4 N/A N/A transcript:Os01t0100400-01 N/A N/A N/A +1 irgsp gene 12808 13978 . -1 . N/A protein_coding N/A Hypothetical protein. (Os01t0100466-00) N/A N/A N/A Os01g0100466 gene:Os01g0100466 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 12808 13978 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100466-00 N/A N/A gene:Os01g0100466 N/A N/A Os01t0100466-00 +1 irgsp exon 12808 13782 . -1 . N/A N/A 1 N/A -1 -1 Os01t0100466-00.exon2 N/A Os01t0100466-00.exon2 N/A Os01t0100466-00.exon2 transcript:Os01t0100466-00 N/A 2 N/A +1 irgsp exon 13880 13978 . -1 . N/A N/A 1 N/A -1 -1 Os01t0100466-00.exon1 N/A Os01t0100466-00.exon1 N/A Os01t0100466-00.exon1 transcript:Os01t0100466-00 N/A 1 N/A +1 irgsp CDS 12869 13102 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100466-00 N/A N/A transcript:Os01t0100466-00 Os01t0100466-00 N/A N/A +1 irgsp five_prime_UTR 13103 13782 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-5 N/A N/A transcript:Os01t0100466-00 N/A N/A N/A +1 irgsp five_prime_UTR 13880 13978 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-6 N/A N/A transcript:Os01t0100466-00 N/A N/A N/A +1 irgsp three_prime_UTR 12808 12868 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-5 N/A N/A transcript:Os01t0100466-00 N/A N/A N/A +1 irgsp gene 16399 20144 . 1 . N/A protein_coding N/A Immunoglobulin-like domain containing protein. (Os01t0100500-01) N/A N/A N/A Os01g0100500 gene:Os01g0100500 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 16399 20144 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100500-01 N/A N/A gene:Os01g0100500 N/A N/A Os01t0100500-01 +1 irgsp exon 16399 16976 . 1 . N/A N/A 1 N/A 0 -1 Os01t0100500-01.exon1 N/A Os01t0100500-01.exon1 N/A Os01t0100500-01.exon1 transcript:Os01t0100500-01 N/A 1 N/A +1 irgsp exon 17383 17474 . 1 . N/A N/A 1 N/A 2 0 Os01t0100500-01.exon2 N/A Os01t0100500-01.exon2 N/A Os01t0100500-01.exon2 transcript:Os01t0100500-01 N/A 2 N/A +1 irgsp exon 17558 18258 . 1 . N/A N/A 1 N/A 1 2 Os01t0100500-01.exon3 N/A Os01t0100500-01.exon3 N/A Os01t0100500-01.exon3 transcript:Os01t0100500-01 N/A 3 N/A +1 irgsp exon 18501 18571 . 1 . N/A N/A 1 N/A 0 1 Os01t0100500-01.exon4 N/A Os01t0100500-01.exon4 N/A Os01t0100500-01.exon4 transcript:Os01t0100500-01 N/A 4 N/A +1 irgsp exon 18968 19057 . 1 . N/A N/A 1 N/A 0 0 Os01t0100500-01.exon5 N/A Os01t0100500-01.exon5 N/A Os01t0100500-01.exon5 transcript:Os01t0100500-01 N/A 5 N/A +1 irgsp exon 19142 19321 . 1 . N/A N/A 1 N/A 0 0 Os01t0100500-01.exon6 N/A Os01t0100500-01.exon6 N/A Os01t0100500-01.exon6 transcript:Os01t0100500-01 N/A 6 N/A +1 irgsp exon 19531 19629 . 1 . N/A N/A 1 N/A -1 0 Os01t0100500-01.exon7 N/A Os01t0100500-01.exon7 N/A Os01t0100500-01.exon7 transcript:Os01t0100500-01 N/A 7 N/A +1 irgsp exon 19734 20144 . 1 . N/A N/A 1 N/A -1 -1 Os01t0100500-01.exon8 N/A Os01t0100500-01.exon8 N/A Os01t0100500-01.exon8 transcript:Os01t0100500-01 N/A 8 N/A +1 irgsp CDS 16599 16976 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100500-01 N/A N/A transcript:Os01t0100500-01 Os01t0100500-01 N/A N/A +1 irgsp CDS 17383 17474 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100500-01 N/A N/A transcript:Os01t0100500-01 Os01t0100500-01 N/A N/A +1 irgsp CDS 17558 18258 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100500-01 N/A N/A transcript:Os01t0100500-01 Os01t0100500-01 N/A N/A +1 irgsp CDS 18501 18571 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100500-01 N/A N/A transcript:Os01t0100500-01 Os01t0100500-01 N/A N/A +1 irgsp CDS 18968 19057 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100500-01 N/A N/A transcript:Os01t0100500-01 Os01t0100500-01 N/A N/A +1 irgsp CDS 19142 19321 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100500-01 N/A N/A transcript:Os01t0100500-01 Os01t0100500-01 N/A N/A +1 irgsp CDS 19531 19593 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100500-01 N/A N/A transcript:Os01t0100500-01 Os01t0100500-01 N/A N/A +1 irgsp five_prime_UTR 16399 16598 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-7 N/A N/A transcript:Os01t0100500-01 N/A N/A N/A +1 irgsp three_prime_UTR 19594 19629 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-6 N/A N/A transcript:Os01t0100500-01 N/A N/A N/A +1 irgsp three_prime_UTR 19734 20144 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-7 N/A N/A transcript:Os01t0100500-01 N/A N/A N/A +1 irgsp gene 22841 26892 . 1 . N/A protein_coding N/A Single-stranded nucleic acid binding R3H domain containing protein. (Os01t0100600-01) N/A N/A N/A Os01g0100600 gene:Os01g0100600 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 22841 26892 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100600-01 N/A N/A gene:Os01g0100600 N/A N/A Os01t0100600-01 +1 irgsp exon 22841 23281 . 1 . N/A N/A 1 N/A 2 -1 Os01t0100600-01.exon1 N/A Os01t0100600-01.exon1 N/A Os01t0100600-01.exon1 transcript:Os01t0100600-01 N/A 1 N/A +1 irgsp exon 23572 23847 . 1 . N/A N/A 1 N/A 2 2 Os01t0100600-01.exon2 N/A Os01t0100600-01.exon2 N/A Os01t0100600-01.exon2 transcript:Os01t0100600-01 N/A 2 N/A +1 irgsp exon 23962 24033 . 1 . N/A N/A 1 N/A 2 2 Os01t0100600-01.exon3 N/A Os01t0100600-01.exon3 N/A Os01t0100600-01.exon3 transcript:Os01t0100600-01 N/A 3 N/A +1 irgsp exon 24492 24577 . 1 . N/A N/A 1 N/A 1 2 Os01t0100600-01.exon4 N/A Os01t0100600-01.exon4 N/A Os01t0100600-01.exon4 transcript:Os01t0100600-01 N/A 4 N/A +1 irgsp exon 25445 25519 . 1 . N/A N/A 1 N/A 1 1 Os01t0100600-01.exon5 N/A Os01t0100600-01.exon5 N/A Os01t0100600-01.exon5 transcript:Os01t0100600-01 N/A 5 N/A +1 irgsp exon 25883 26892 . 1 . N/A N/A 1 N/A -1 1 Os01t0100600-01.exon6 N/A Os01t0100600-01.exon6 N/A Os01t0100600-01.exon6 transcript:Os01t0100600-01 N/A 6 N/A +1 irgsp CDS 23232 23281 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100600-01 N/A N/A transcript:Os01t0100600-01 Os01t0100600-01 N/A N/A +1 irgsp CDS 23572 23847 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100600-01 N/A N/A transcript:Os01t0100600-01 Os01t0100600-01 N/A N/A +1 irgsp CDS 23962 24033 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100600-01 N/A N/A transcript:Os01t0100600-01 Os01t0100600-01 N/A N/A +1 irgsp CDS 24492 24577 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100600-01 N/A N/A transcript:Os01t0100600-01 Os01t0100600-01 N/A N/A +1 irgsp CDS 25445 25519 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100600-01 N/A N/A transcript:Os01t0100600-01 Os01t0100600-01 N/A N/A +1 irgsp CDS 25883 26391 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100600-01 N/A N/A transcript:Os01t0100600-01 Os01t0100600-01 N/A N/A +1 irgsp five_prime_UTR 22841 23231 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-8 N/A N/A transcript:Os01t0100600-01 N/A N/A N/A +1 irgsp three_prime_UTR 26392 26892 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-8 N/A N/A transcript:Os01t0100600-01 N/A N/A N/A +1 irgsp gene 25861 26424 . -1 . N/A protein_coding N/A Hypothetical gene. (Os01t0100650-00) N/A N/A N/A Os01g0100650 gene:Os01g0100650 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 25861 26424 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100650-00 N/A N/A gene:Os01g0100650 N/A N/A Os01t0100650-00 +1 irgsp exon 25861 26424 . -1 . N/A N/A 1 N/A -1 -1 Os01t0100650-00.exon1 N/A Os01t0100650-00.exon1 N/A Os01t0100650-00.exon1 transcript:Os01t0100650-00 N/A 1 N/A +1 irgsp CDS 26040 26423 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100650-00 N/A N/A transcript:Os01t0100650-00 Os01t0100650-00 N/A N/A +1 irgsp five_prime_UTR 26424 26424 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-9 N/A N/A transcript:Os01t0100650-00 N/A N/A N/A +1 irgsp three_prime_UTR 25861 26039 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-9 N/A N/A transcript:Os01t0100650-00 N/A N/A N/A +1 irgsp gene 27143 28644 . 1 . N/A protein_coding N/A Similar to 40S ribosomal protein S5-1. (Os01t0100700-01) N/A N/A N/A Os01g0100700 gene:Os01g0100700 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 27143 28644 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100700-01 N/A N/A gene:Os01g0100700 N/A N/A Os01t0100700-01 +1 irgsp exon 27143 27292 . 1 . N/A N/A 1 N/A 0 -1 Os01t0100700-01.exon1 N/A Os01t0100700-01.exon1 N/A Os01t0100700-01.exon1 transcript:Os01t0100700-01 N/A 1 N/A +1 irgsp exon 27370 27641 . 1 . N/A N/A 1 N/A 2 0 Os01t0100700-01.exon2 N/A Os01t0100700-01.exon2 N/A Os01t0100700-01.exon2 transcript:Os01t0100700-01 N/A 2 N/A +1 irgsp exon 28090 28293 . 1 . N/A N/A 1 N/A 2 2 Os01t0100700-01.exon3 N/A Os01t0100700-01.exon3 N/A Os01t0100700-01.exon3 transcript:Os01t0100700-01 N/A 3 N/A +1 irgsp exon 28365 28644 . 1 . N/A N/A 1 N/A -1 2 Os01t0100700-01.exon4 N/A Os01t0100700-01.exon4 N/A Os01t0100700-01.exon4 transcript:Os01t0100700-01 N/A 4 N/A +1 irgsp CDS 27221 27292 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100700-01 N/A N/A transcript:Os01t0100700-01 Os01t0100700-01 N/A N/A +1 irgsp CDS 27370 27641 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100700-01 N/A N/A transcript:Os01t0100700-01 Os01t0100700-01 N/A N/A +1 irgsp CDS 28090 28293 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100700-01 N/A N/A transcript:Os01t0100700-01 Os01t0100700-01 N/A N/A +1 irgsp CDS 28365 28419 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100700-01 N/A N/A transcript:Os01t0100700-01 Os01t0100700-01 N/A N/A +1 irgsp five_prime_UTR 27143 27220 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-10 N/A N/A transcript:Os01t0100700-01 N/A N/A N/A +1 irgsp three_prime_UTR 28420 28644 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-10 N/A N/A transcript:Os01t0100700-01 N/A N/A N/A +1 irgsp gene 29818 34453 . 1 . N/A protein_coding N/A Protein of unknown function DUF1664 family protein. (Os01t0100800-01) N/A N/A N/A Os01g0100800 gene:Os01g0100800 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 29818 34453 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100800-01 N/A N/A gene:Os01g0100800 N/A N/A Os01t0100800-01 +1 irgsp exon 29818 29976 . 1 . N/A N/A 1 N/A 1 -1 Os01t0100800-01.exon1 N/A Os01t0100800-01.exon1 N/A Os01t0100800-01.exon1 transcript:Os01t0100800-01 N/A 1 N/A +1 irgsp exon 30146 30228 . 1 . N/A N/A 1 N/A 0 1 Os01t0100800-01.exon2 N/A Os01t0100800-01.exon2 N/A Os01t0100800-01.exon2 transcript:Os01t0100800-01 N/A 2 N/A +1 irgsp exon 30735 30806 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon3 N/A Os01t0100800-01.exon3 N/A Os01t0100800-01.exon3 transcript:Os01t0100800-01 N/A 3 N/A +1 irgsp exon 30885 30963 . 1 . N/A N/A 1 N/A 1 0 Os01t0100800-01.exon4 N/A Os01t0100800-01.exon4 N/A Os01t0100800-01.exon4 transcript:Os01t0100800-01 N/A 4 N/A +1 irgsp exon 31258 31325 . 1 . N/A N/A 1 N/A 0 1 Os01t0100800-01.exon5 N/A Os01t0100800-01.exon5 N/A Os01t0100800-01.exon5 transcript:Os01t0100800-01 N/A 5 N/A +1 irgsp exon 31505 31606 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon6 N/A Os01t0100800-01.exon6 N/A Os01t0100800-01.exon6 transcript:Os01t0100800-01 N/A 6 N/A +1 irgsp exon 32377 32466 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon7 N/A Os01t0100800-01.exon7 N/A Os01t0100800-01.exon7 transcript:Os01t0100800-01 N/A 7 N/A +1 irgsp exon 32542 32616 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon8 N/A Os01t0100800-01.exon8 N/A Os01t0100800-01.exon8 transcript:Os01t0100800-01 N/A 8 N/A +1 irgsp exon 32712 32744 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon9 N/A Os01t0100800-01.exon9 N/A Os01t0100800-01.exon9 transcript:Os01t0100800-01 N/A 9 N/A +1 irgsp exon 32828 32905 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon10 N/A Os01t0100800-01.exon10 N/A Os01t0100800-01.exon10 transcript:Os01t0100800-01 N/A 10 N/A +1 irgsp exon 33274 33330 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon11 N/A Os01t0100800-01.exon11 N/A Os01t0100800-01.exon11 transcript:Os01t0100800-01 N/A 11 N/A +1 irgsp exon 33400 33471 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon12 N/A Os01t0100800-01.exon12 N/A Os01t0100800-01.exon12 transcript:Os01t0100800-01 N/A 12 N/A +1 irgsp exon 33543 33617 . 1 . N/A N/A 1 N/A 0 0 Os01t0100800-01.exon13 N/A Os01t0100800-01.exon13 N/A Os01t0100800-01.exon13 transcript:Os01t0100800-01 N/A 13 N/A +1 irgsp exon 33975 34453 . 1 . N/A N/A 1 N/A -1 0 Os01t0100800-01.exon14 N/A Os01t0100800-01.exon14 N/A Os01t0100800-01.exon14 transcript:Os01t0100800-01 N/A 14 N/A +1 irgsp CDS 29940 29976 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 30146 30228 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 30735 30806 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 30885 30963 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 31258 31325 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 31505 31606 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 32377 32466 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 32542 32616 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 32712 32744 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 32828 32905 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 33274 33330 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 33400 33471 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 33543 33617 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp CDS 33975 34124 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100800-01 N/A N/A transcript:Os01t0100800-01 Os01t0100800-01 N/A N/A +1 irgsp five_prime_UTR 29818 29939 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-11 N/A N/A transcript:Os01t0100800-01 N/A N/A N/A +1 irgsp three_prime_UTR 34125 34453 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-11 N/A N/A transcript:Os01t0100800-01 N/A N/A N/A +1 irgsp gene 35623 41136 . 1 . N/A protein_coding N/A Sphingosine-1-phosphate lyase, Disease resistance response (Os01t0100900-01) N/A N/A N/A Os01g0100900 gene:Os01g0100900 irgspv1.0-20170804-genes SPHINGOSINE-1-PHOSPHATE LYASE 1, Sphingosine-1-Phoshpate Lyase 1 N/A N/A N/A N/A +1 irgsp mRNA 35623 41136 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0100900-01 N/A N/A gene:Os01g0100900 N/A N/A Os01t0100900-01 +1 irgsp exon 35623 35939 . 1 . N/A N/A 1 N/A 2 -1 Os01t0100900-01.exon1 N/A Os01t0100900-01.exon1 N/A Os01t0100900-01.exon1 transcript:Os01t0100900-01 N/A 1 N/A +1 irgsp exon 36027 36072 . 1 . N/A N/A 1 N/A 0 2 Os01t0100900-01.exon2 N/A Os01t0100900-01.exon2 N/A Os01t0100900-01.exon2 transcript:Os01t0100900-01 N/A 2 N/A +1 irgsp exon 36517 36668 . 1 . N/A N/A 1 N/A 2 0 Os01t0100900-01.exon3 N/A Os01t0100900-01.exon3 N/A Os01t0100900-01.exon3 transcript:Os01t0100900-01 N/A 3 N/A +1 irgsp exon 36818 36877 . 1 . N/A N/A 1 N/A 2 2 Os01t0100900-01.exon4 N/A Os01t0100900-01.exon4 N/A Os01t0100900-01.exon4 transcript:Os01t0100900-01 N/A 4 N/A +1 irgsp exon 37594 37818 . 1 . N/A N/A 1 N/A 2 2 Os01t0100900-01.exon5 N/A Os01t0100900-01.exon5 N/A Os01t0100900-01.exon5 transcript:Os01t0100900-01 N/A 5 N/A +1 irgsp exon 37892 38033 . 1 . N/A N/A 1 N/A 0 2 Os01t0100900-01.exon6 N/A Os01t0100900-01.exon6 N/A Os01t0100900-01.exon6 transcript:Os01t0100900-01 N/A 6 N/A +1 irgsp exon 38276 38326 . 1 . N/A N/A 1 N/A 0 0 Os01t0100900-01.exon7 N/A Os01t0100900-01.exon7 N/A Os01t0100900-01.exon7 transcript:Os01t0100900-01 N/A 7 N/A +1 irgsp exon 38434 38525 . 1 . N/A N/A 1 N/A 2 0 Os01t0100900-01.exon8 N/A Os01t0100900-01.exon8 N/A Os01t0100900-01.exon8 transcript:Os01t0100900-01 N/A 8 N/A +1 irgsp exon 39319 39445 . 1 . N/A N/A 1 N/A 0 2 Os01t0100900-01.exon9 N/A Os01t0100900-01.exon9 N/A Os01t0100900-01.exon9 transcript:Os01t0100900-01 N/A 9 N/A +1 irgsp exon 39553 39568 . 1 . N/A N/A 1 N/A 1 0 Os01t0100900-01.exon10 N/A Os01t0100900-01.exon10 N/A Os01t0100900-01.exon10 transcript:Os01t0100900-01 N/A 10 N/A +1 irgsp exon 39939 40046 . 1 . N/A N/A 1 N/A 1 1 Os01t0100900-01.exon11 N/A Os01t0100900-01.exon11 N/A Os01t0100900-01.exon11 transcript:Os01t0100900-01 N/A 11 N/A +1 irgsp exon 40135 40189 . 1 . N/A N/A 1 N/A 2 1 Os01t0100900-01.exon12 N/A Os01t0100900-01.exon12 N/A Os01t0100900-01.exon12 transcript:Os01t0100900-01 N/A 12 N/A +1 irgsp exon 40456 40602 . 1 . N/A N/A 1 N/A 2 2 Os01t0100900-01.exon13 N/A Os01t0100900-01.exon13 N/A Os01t0100900-01.exon13 transcript:Os01t0100900-01 N/A 13 N/A +1 irgsp exon 40703 40781 . 1 . N/A N/A 1 N/A 0 2 Os01t0100900-01.exon14 N/A Os01t0100900-01.exon14 N/A Os01t0100900-01.exon14 transcript:Os01t0100900-01 N/A 14 N/A +1 irgsp exon 40885 41136 . 1 . N/A N/A 1 N/A -1 0 Os01t0100900-01.exon15 N/A Os01t0100900-01.exon15 N/A Os01t0100900-01.exon15 transcript:Os01t0100900-01 N/A 15 N/A +1 irgsp CDS 35743 35939 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 36027 36072 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 36517 36668 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 36818 36877 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 37594 37818 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 37892 38033 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 38276 38326 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 38434 38525 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 39319 39445 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 39553 39568 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 39939 40046 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 40135 40189 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 40456 40602 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 40703 40781 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp CDS 40885 41007 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0100900-01 N/A N/A transcript:Os01t0100900-01 Os01t0100900-01 N/A N/A +1 irgsp five_prime_UTR 35623 35742 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-12 N/A N/A transcript:Os01t0100900-01 N/A N/A N/A +1 irgsp three_prime_UTR 41008 41136 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-12 N/A N/A transcript:Os01t0100900-01 N/A N/A N/A +1 irgsp gene 58658 61090 . 1 . N/A protein_coding N/A Hypothetical conserved gene. (Os01t0101150-00) N/A N/A N/A Os01g0101150 gene:Os01g0101150 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 58658 61090 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101150-00 N/A N/A gene:Os01g0101150 N/A N/A Os01t0101150-00 +1 irgsp exon 58658 61090 . 1 . N/A N/A 1 N/A 0 0 Os01t0101150-00.exon1 N/A Os01t0101150-00.exon1 N/A Os01t0101150-00.exon1 transcript:Os01t0101150-00 N/A 1 N/A +1 irgsp CDS 58658 61090 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101150-00 N/A N/A transcript:Os01t0101150-00 Os01t0101150-00 N/A N/A +1 irgsp gene 62060 65537 . 1 . N/A protein_coding N/A 2,3-diketo-5-methylthio-1-phosphopentane phosphatase domain containing protein. (Os01t0101200-01);2,3-diketo-5-methylthio-1-phosphopentane phosphatase domain containing protein. (Os01t0101200-02) N/A N/A N/A Os01g0101200 gene:Os01g0101200 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 62060 63576 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101200-01 N/A N/A gene:Os01g0101200 N/A N/A Os01t0101200-01 +1 irgsp exon 62060 62295 . 1 . N/A N/A 0 N/A 0 -1 Os01t0101200-01.exon1 N/A Os01t0101200-01.exon1 N/A Os01t0101200-01.exon1 transcript:Os01t0101200-01 N/A 1 N/A +1 irgsp exon 62385 62905 . 1 . N/A N/A 1 N/A 2 0 Os01t0101200-02.exon2 N/A Os01t0101200-02.exon2 N/A Os01t0101200-02.exon2 transcript:Os01t0101200-01 N/A 2 N/A +1 irgsp exon 62996 63114 . 1 . N/A N/A 1 N/A 1 2 Os01t0101200-02.exon3 N/A Os01t0101200-02.exon3 N/A Os01t0101200-02.exon3 transcript:Os01t0101200-01 N/A 3 N/A +1 irgsp exon 63248 63576 . 1 . N/A N/A 0 N/A -1 1 Os01t0101200-01.exon4 N/A Os01t0101200-01.exon4 N/A Os01t0101200-01.exon4 transcript:Os01t0101200-01 N/A 4 N/A +1 irgsp CDS 62104 62295 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101200-01 N/A N/A transcript:Os01t0101200-01 Os01t0101200-01 N/A N/A +1 irgsp CDS 62385 62905 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101200-01 N/A N/A transcript:Os01t0101200-01 Os01t0101200-01 N/A N/A +1 irgsp CDS 62996 63114 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101200-01 N/A N/A transcript:Os01t0101200-01 Os01t0101200-01 N/A N/A +1 irgsp CDS 63248 63345 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101200-01 N/A N/A transcript:Os01t0101200-01 Os01t0101200-01 N/A N/A +1 irgsp five_prime_UTR 62060 62103 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-13 N/A N/A transcript:Os01t0101200-01 N/A N/A N/A +1 irgsp three_prime_UTR 63346 63576 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-13 N/A N/A transcript:Os01t0101200-01 N/A N/A N/A +1 irgsp mRNA 62112 65537 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101200-02 N/A N/A gene:Os01g0101200 N/A N/A Os01t0101200-02 +1 irgsp exon 62112 62295 . 1 . N/A N/A 0 N/A 0 -1 Os01t0101200-02.exon1 N/A Os01t0101200-02.exon1 N/A Os01t0101200-02.exon1 transcript:Os01t0101200-02 N/A 1 N/A +1 irgsp exon 62385 62905 . 1 . N/A N/A 1 N/A 2 0 Os01t0101200-02.exon2 N/A agat-exon-1 N/A Os01t0101200-02.exon2 transcript:Os01t0101200-02 N/A 2 N/A +1 irgsp exon 62996 63114 . 1 . N/A N/A 1 N/A 1 2 Os01t0101200-02.exon3 N/A agat-exon-2 N/A Os01t0101200-02.exon3 transcript:Os01t0101200-02 N/A 3 N/A +1 irgsp exon 63248 65537 . 1 . N/A N/A 0 N/A -1 1 Os01t0101200-02.exon4 N/A Os01t0101200-02.exon4 N/A Os01t0101200-02.exon4 transcript:Os01t0101200-02 N/A 4 N/A +1 irgsp CDS 62113 62295 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101200-02 N/A N/A transcript:Os01t0101200-02 Os01t0101200-02 N/A N/A +1 irgsp CDS 62385 62905 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101200-02 N/A N/A transcript:Os01t0101200-02 Os01t0101200-02 N/A N/A +1 irgsp CDS 62996 63114 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101200-02 N/A N/A transcript:Os01t0101200-02 Os01t0101200-02 N/A N/A +1 irgsp CDS 63248 63345 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101200-02 N/A N/A transcript:Os01t0101200-02 Os01t0101200-02 N/A N/A +1 irgsp five_prime_UTR 62112 62112 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-14 N/A N/A transcript:Os01t0101200-02 N/A N/A N/A +1 irgsp three_prime_UTR 63346 65537 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-14 N/A N/A transcript:Os01t0101200-02 N/A N/A N/A +1 irgsp gene 63350 66302 . -1 . N/A protein_coding N/A Similar to MRNA, partial cds, clone: RAFL22-26-L17. (Fragment). (Os01t0101300-01) N/A N/A N/A Os01g0101300 gene:Os01g0101300 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 63350 66302 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101300-01 N/A N/A gene:Os01g0101300 N/A N/A Os01t0101300-01 +1 irgsp exon 63350 63783 . -1 . N/A N/A 1 N/A -1 0 Os01t0101300-01.exon7 N/A Os01t0101300-01.exon7 N/A Os01t0101300-01.exon7 transcript:Os01t0101300-01 N/A 7 N/A +1 irgsp exon 63877 64020 . -1 . N/A N/A 1 N/A 0 0 Os01t0101300-01.exon6 N/A Os01t0101300-01.exon6 N/A Os01t0101300-01.exon6 transcript:Os01t0101300-01 N/A 6 N/A +1 irgsp exon 64339 64431 . -1 . N/A N/A 1 N/A 0 0 Os01t0101300-01.exon5 N/A Os01t0101300-01.exon5 N/A Os01t0101300-01.exon5 transcript:Os01t0101300-01 N/A 5 N/A +1 irgsp exon 64665 64779 . -1 . N/A N/A 1 N/A 0 2 Os01t0101300-01.exon4 N/A Os01t0101300-01.exon4 N/A Os01t0101300-01.exon4 transcript:Os01t0101300-01 N/A 4 N/A +1 irgsp exon 64902 65152 . -1 . N/A N/A 1 N/A 2 0 Os01t0101300-01.exon3 N/A Os01t0101300-01.exon3 N/A Os01t0101300-01.exon3 transcript:Os01t0101300-01 N/A 3 N/A +1 irgsp exon 65248 65431 . -1 . N/A N/A 1 N/A 0 2 Os01t0101300-01.exon2 N/A Os01t0101300-01.exon2 N/A Os01t0101300-01.exon2 transcript:Os01t0101300-01 N/A 2 N/A +1 irgsp exon 65628 66302 . -1 . N/A N/A 1 N/A 2 -1 Os01t0101300-01.exon1 N/A Os01t0101300-01.exon1 N/A Os01t0101300-01.exon1 transcript:Os01t0101300-01 N/A 1 N/A +1 irgsp CDS 63670 63783 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101300-01 N/A N/A transcript:Os01t0101300-01 Os01t0101300-01 N/A N/A +1 irgsp CDS 63877 64020 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101300-01 N/A N/A transcript:Os01t0101300-01 Os01t0101300-01 N/A N/A +1 irgsp CDS 64339 64431 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101300-01 N/A N/A transcript:Os01t0101300-01 Os01t0101300-01 N/A N/A +1 irgsp CDS 64665 64779 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101300-01 N/A N/A transcript:Os01t0101300-01 Os01t0101300-01 N/A N/A +1 irgsp CDS 64902 65152 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101300-01 N/A N/A transcript:Os01t0101300-01 Os01t0101300-01 N/A N/A +1 irgsp CDS 65248 65431 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101300-01 N/A N/A transcript:Os01t0101300-01 Os01t0101300-01 N/A N/A +1 irgsp CDS 65628 65950 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101300-01 N/A N/A transcript:Os01t0101300-01 Os01t0101300-01 N/A N/A +1 irgsp five_prime_UTR 65951 66302 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-15 N/A N/A transcript:Os01t0101300-01 N/A N/A N/A +1 irgsp three_prime_UTR 63350 63669 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-15 N/A N/A transcript:Os01t0101300-01 N/A N/A N/A +1 irgsp gene 72816 78349 . 1 . N/A protein_coding N/A Immunoglobulin-like fold domain containing protein. (Os01t0101600-01);Immunoglobulin-like fold domain containing protein. (Os01t0101600-02);Hypothetical conserved gene. (Os01t0101600-03) N/A N/A N/A Os01g0101600 gene:Os01g0101600 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 72816 78349 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101600-01 N/A N/A gene:Os01g0101600 N/A N/A Os01t0101600-01 +1 irgsp exon 72816 73935 . 1 . N/A N/A 0 N/A 1 -1 Os01t0101600-01.exon1 N/A Os01t0101600-01.exon1 N/A Os01t0101600-01.exon1 transcript:Os01t0101600-01 N/A 1 N/A +1 irgsp exon 74468 74981 . 1 . N/A N/A 0 N/A 2 1 Os01t0101600-02.exon2 N/A Os01t0101600-02.exon2 N/A Os01t0101600-02.exon2 transcript:Os01t0101600-01 N/A 2 N/A +1 irgsp exon 75619 77205 . 1 . N/A N/A 0 N/A -1 2 Os01t0101600-01.exon3 N/A Os01t0101600-01.exon3 N/A Os01t0101600-01.exon3 transcript:Os01t0101600-01 N/A 3 N/A +1 irgsp exon 77333 78349 . 1 . N/A N/A 0 N/A -1 -1 Os01t0101600-01.exon4 N/A Os01t0101600-01.exon4 N/A Os01t0101600-01.exon4 transcript:Os01t0101600-01 N/A 4 N/A +1 irgsp CDS 72903 73935 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101600-01 N/A N/A transcript:Os01t0101600-01 Os01t0101600-01 N/A N/A +1 irgsp CDS 74468 74981 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101600-01 N/A N/A transcript:Os01t0101600-01 Os01t0101600-01 N/A N/A +1 irgsp CDS 75619 77008 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101600-01 N/A N/A transcript:Os01t0101600-01 Os01t0101600-01 N/A N/A +1 irgsp five_prime_UTR 72816 72902 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-16 N/A N/A transcript:Os01t0101600-01 N/A N/A N/A +1 irgsp three_prime_UTR 77009 77205 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-16 N/A N/A transcript:Os01t0101600-01 N/A N/A N/A +1 irgsp three_prime_UTR 77333 78349 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-17 N/A N/A transcript:Os01t0101600-01 N/A N/A N/A +1 irgsp mRNA 72823 77699 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101600-02 N/A N/A gene:Os01g0101600 N/A N/A Os01t0101600-02 +1 irgsp exon 72823 73935 . 1 . N/A N/A 0 N/A 1 -1 Os01t0101600-02.exon1 N/A Os01t0101600-02.exon1 N/A Os01t0101600-02.exon1 transcript:Os01t0101600-02 N/A 1 N/A +1 irgsp exon 74468 74981 . 1 . N/A N/A 0 N/A 2 1 Os01t0101600-02.exon2 N/A agat-exon-3 N/A Os01t0101600-02.exon2 transcript:Os01t0101600-02 N/A 2 N/A +1 irgsp exon 75619 77699 . 1 . N/A N/A 0 N/A -1 2 Os01t0101600-02.exon3 N/A Os01t0101600-02.exon3 N/A Os01t0101600-02.exon3 transcript:Os01t0101600-02 N/A 3 N/A +1 irgsp CDS 72903 73935 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101600-02 N/A N/A transcript:Os01t0101600-02 Os01t0101600-02 N/A N/A +1 irgsp CDS 74468 74981 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101600-02 N/A N/A transcript:Os01t0101600-02 Os01t0101600-02 N/A N/A +1 irgsp CDS 75619 77008 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101600-02 N/A N/A transcript:Os01t0101600-02 Os01t0101600-02 N/A N/A +1 irgsp five_prime_UTR 72823 72902 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-17 N/A N/A transcript:Os01t0101600-02 N/A N/A N/A +1 irgsp three_prime_UTR 77009 77699 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-18 N/A N/A transcript:Os01t0101600-02 N/A N/A N/A +1 irgsp mRNA 75942 77699 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101600-03 N/A N/A gene:Os01g0101600 N/A N/A Os01t0101600-03 +1 irgsp exon 75942 77699 . 1 . N/A N/A 0 N/A -1 -1 Os01t0101600-03.exon1 N/A Os01t0101600-03.exon1 N/A Os01t0101600-03.exon1 transcript:Os01t0101600-03 N/A 1 N/A +1 irgsp CDS 75944 77008 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101600-03 N/A N/A transcript:Os01t0101600-03 Os01t0101600-03 N/A N/A +1 irgsp five_prime_UTR 75942 75943 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-18 N/A N/A transcript:Os01t0101600-03 N/A N/A N/A +1 irgsp three_prime_UTR 77009 77699 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-19 N/A N/A transcript:Os01t0101600-03 N/A N/A N/A +1 irgsp gene 82426 84095 . 1 . N/A protein_coding N/A Similar to chaperone protein dnaJ 20. (Os01t0101700-00) N/A N/A N/A Os01g0101700 gene:Os01g0101700 irgspv1.0-20170804-genes DnaJ domain protein C1, rice DJC26 homolog N/A N/A N/A N/A +1 irgsp mRNA 82426 84095 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101700-00 N/A N/A gene:Os01g0101700 N/A N/A Os01t0101700-00 +1 irgsp exon 82426 82932 . 1 . N/A N/A 1 N/A 0 -1 Os01t0101700-00.exon1 N/A Os01t0101700-00.exon1 N/A Os01t0101700-00.exon1 transcript:Os01t0101700-00 N/A 1 N/A +1 irgsp exon 83724 84095 . 1 . N/A N/A 1 N/A -1 0 Os01t0101700-00.exon2 N/A Os01t0101700-00.exon2 N/A Os01t0101700-00.exon2 transcript:Os01t0101700-00 N/A 2 N/A +1 irgsp CDS 82507 82932 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101700-00 N/A N/A transcript:Os01t0101700-00 Os01t0101700-00 N/A N/A +1 irgsp CDS 83724 83864 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101700-00 N/A N/A transcript:Os01t0101700-00 Os01t0101700-00 N/A N/A +1 irgsp five_prime_UTR 82426 82506 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-19 N/A N/A transcript:Os01t0101700-00 N/A N/A N/A +1 irgsp three_prime_UTR 83865 84095 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-20 N/A N/A transcript:Os01t0101700-00 N/A N/A N/A +1 irgsp gene 85337 88844 . 1 . N/A protein_coding N/A Conserved hypothetical protein. (Os01t0101800-01) N/A N/A N/A Os01g0101800 gene:Os01g0101800 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 85337 88844 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101800-01 N/A N/A gene:Os01g0101800 N/A N/A Os01t0101800-01 +1 irgsp exon 85337 85600 . 1 . N/A N/A 1 N/A 0 -1 Os01t0101800-01.exon1 N/A Os01t0101800-01.exon1 N/A Os01t0101800-01.exon1 transcript:Os01t0101800-01 N/A 1 N/A +1 irgsp exon 85737 85830 . 1 . N/A N/A 1 N/A 1 0 Os01t0101800-01.exon2 N/A Os01t0101800-01.exon2 N/A Os01t0101800-01.exon2 transcript:Os01t0101800-01 N/A 2 N/A +1 irgsp exon 85935 86086 . 1 . N/A N/A 1 N/A 0 1 Os01t0101800-01.exon3 N/A Os01t0101800-01.exon3 N/A Os01t0101800-01.exon3 transcript:Os01t0101800-01 N/A 3 N/A +1 irgsp exon 86212 86299 . 1 . N/A N/A 1 N/A 1 0 Os01t0101800-01.exon4 N/A Os01t0101800-01.exon4 N/A Os01t0101800-01.exon4 transcript:Os01t0101800-01 N/A 4 N/A +1 irgsp exon 86399 87681 . 1 . N/A N/A 1 N/A 0 1 Os01t0101800-01.exon5 N/A Os01t0101800-01.exon5 N/A Os01t0101800-01.exon5 transcript:Os01t0101800-01 N/A 5 N/A +1 irgsp exon 88291 88398 . 1 . N/A N/A 1 N/A 0 0 Os01t0101800-01.exon6 N/A Os01t0101800-01.exon6 N/A Os01t0101800-01.exon6 transcript:Os01t0101800-01 N/A 6 N/A +1 irgsp exon 88500 88844 . 1 . N/A N/A 1 N/A -1 0 Os01t0101800-01.exon7 N/A Os01t0101800-01.exon7 N/A Os01t0101800-01.exon7 transcript:Os01t0101800-01 N/A 7 N/A +1 irgsp CDS 85379 85600 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101800-01 N/A N/A transcript:Os01t0101800-01 Os01t0101800-01 N/A N/A +1 irgsp CDS 85737 85830 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101800-01 N/A N/A transcript:Os01t0101800-01 Os01t0101800-01 N/A N/A +1 irgsp CDS 85935 86086 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101800-01 N/A N/A transcript:Os01t0101800-01 Os01t0101800-01 N/A N/A +1 irgsp CDS 86212 86299 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101800-01 N/A N/A transcript:Os01t0101800-01 Os01t0101800-01 N/A N/A +1 irgsp CDS 86399 87681 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101800-01 N/A N/A transcript:Os01t0101800-01 Os01t0101800-01 N/A N/A +1 irgsp CDS 88291 88398 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101800-01 N/A N/A transcript:Os01t0101800-01 Os01t0101800-01 N/A N/A +1 irgsp CDS 88500 88583 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101800-01 N/A N/A transcript:Os01t0101800-01 Os01t0101800-01 N/A N/A +1 irgsp five_prime_UTR 85337 85378 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-20 N/A N/A transcript:Os01t0101800-01 N/A N/A N/A +1 irgsp three_prime_UTR 88584 88844 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-21 N/A N/A transcript:Os01t0101800-01 N/A N/A N/A +1 irgsp gene 86211 88583 . -1 . N/A protein_coding N/A Hypothetical protein. (Os01t0101850-00) N/A N/A N/A Os01g0101850 gene:Os01g0101850 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 86211 88583 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101850-00 N/A N/A gene:Os01g0101850 N/A N/A Os01t0101850-00 +1 irgsp exon 86211 86277 . -1 . N/A N/A 1 N/A -1 -1 Os01t0101850-00.exon4 N/A Os01t0101850-00.exon4 N/A Os01t0101850-00.exon4 transcript:Os01t0101850-00 N/A 4 N/A +1 irgsp exon 86384 87694 . -1 . N/A N/A 1 N/A -1 -1 Os01t0101850-00.exon3 N/A Os01t0101850-00.exon3 N/A Os01t0101850-00.exon3 transcript:Os01t0101850-00 N/A 3 N/A +1 irgsp exon 88308 88396 . -1 . N/A N/A 1 N/A -1 -1 Os01t0101850-00.exon2 N/A Os01t0101850-00.exon2 N/A Os01t0101850-00.exon2 transcript:Os01t0101850-00 N/A 2 N/A +1 irgsp exon 88496 88583 . -1 . N/A N/A 1 N/A -1 -1 Os01t0101850-00.exon1 N/A Os01t0101850-00.exon1 N/A Os01t0101850-00.exon1 transcript:Os01t0101850-00 N/A 1 N/A +1 irgsp CDS 87327 87662 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101850-00 N/A N/A transcript:Os01t0101850-00 Os01t0101850-00 N/A N/A +1 irgsp five_prime_UTR 87663 87694 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-21 N/A N/A transcript:Os01t0101850-00 N/A N/A N/A +1 irgsp five_prime_UTR 88308 88396 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-22 N/A N/A transcript:Os01t0101850-00 N/A N/A N/A +1 irgsp five_prime_UTR 88496 88583 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-23 N/A N/A transcript:Os01t0101850-00 N/A N/A N/A +1 irgsp three_prime_UTR 86211 86277 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-22 N/A N/A transcript:Os01t0101850-00 N/A N/A N/A +1 irgsp three_prime_UTR 86384 87326 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-23 N/A N/A transcript:Os01t0101850-00 N/A N/A N/A +1 irgsp gene 88883 89228 . -1 . N/A protein_coding N/A Similar to OSIGBa0075F02.3 protein. (Os01t0101900-00) N/A N/A N/A Os01g0101900 gene:Os01g0101900 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 88883 89228 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0101900-00 N/A N/A gene:Os01g0101900 N/A N/A Os01t0101900-00 +1 irgsp exon 88883 89228 . -1 . N/A N/A 1 N/A -1 -1 Os01t0101900-00.exon1 N/A Os01t0101900-00.exon1 N/A Os01t0101900-00.exon1 transcript:Os01t0101900-00 N/A 1 N/A +1 irgsp CDS 88986 89204 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0101900-00 N/A N/A transcript:Os01t0101900-00 Os01t0101900-00 N/A N/A +1 irgsp five_prime_UTR 89205 89228 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-24 N/A N/A transcript:Os01t0101900-00 N/A N/A N/A +1 irgsp three_prime_UTR 88883 88985 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-24 N/A N/A transcript:Os01t0101900-00 N/A N/A N/A +1 irgsp gene 89763 91465 . -1 . N/A protein_coding N/A Phosphoesterase family protein. (Os01t0102000-01) N/A N/A N/A Os01g0102000 gene:Os01g0102000 irgspv1.0-20170804-genes NON-SPECIFIC PHOSPHOLIPASE C5 N/A N/A N/A N/A +1 irgsp mRNA 89763 91465 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102000-01 N/A N/A gene:Os01g0102000 N/A N/A Os01t0102000-01 +1 irgsp exon 89763 91465 . -1 . N/A N/A 1 N/A -1 -1 Os01t0102000-01.exon1 N/A Os01t0102000-01.exon1 N/A Os01t0102000-01.exon1 transcript:Os01t0102000-01 N/A 1 N/A +1 irgsp CDS 89825 91411 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102000-01 N/A N/A transcript:Os01t0102000-01 Os01t0102000-01 N/A N/A +1 irgsp five_prime_UTR 91412 91465 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-25 N/A N/A transcript:Os01t0102000-01 N/A N/A N/A +1 irgsp three_prime_UTR 89763 89824 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-25 N/A N/A transcript:Os01t0102000-01 N/A N/A N/A +1 irgsp gene 134300 135439 . 1 . N/A protein_coding N/A Thylakoid lumen protein, Photosynthesis and chloroplast development (Os01t0102300-01) N/A N/A N/A Os01g0102300 gene:Os01g0102300 irgspv1.0-20170804-genes OsTLP27 N/A N/A N/A N/A +1 irgsp mRNA 134300 135439 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102300-01 N/A N/A gene:Os01g0102300 N/A N/A Os01t0102300-01 +1 irgsp exon 134300 134615 . 1 . N/A N/A 1 N/A 2 -1 Os01t0102300-01.exon1 N/A Os01t0102300-01.exon1 N/A Os01t0102300-01.exon1 transcript:Os01t0102300-01 N/A 1 N/A +1 irgsp exon 134698 134824 . 1 . N/A N/A 1 N/A 0 2 Os01t0102300-01.exon2 N/A Os01t0102300-01.exon2 N/A Os01t0102300-01.exon2 transcript:Os01t0102300-01 N/A 2 N/A +1 irgsp exon 134912 135439 . 1 . N/A N/A 1 N/A -1 0 Os01t0102300-01.exon3 N/A Os01t0102300-01.exon3 N/A Os01t0102300-01.exon3 transcript:Os01t0102300-01 N/A 3 N/A +1 irgsp CDS 134311 134615 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102300-01 N/A N/A transcript:Os01t0102300-01 Os01t0102300-01 N/A N/A +1 irgsp CDS 134698 134824 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102300-01 N/A N/A transcript:Os01t0102300-01 Os01t0102300-01 N/A N/A +1 irgsp CDS 134912 135253 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102300-01 N/A N/A transcript:Os01t0102300-01 Os01t0102300-01 N/A N/A +1 irgsp five_prime_UTR 134300 134310 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-26 N/A N/A transcript:Os01t0102300-01 N/A N/A N/A +1 irgsp three_prime_UTR 135254 135439 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-26 N/A N/A transcript:Os01t0102300-01 N/A N/A N/A +1 irgsp gene 139826 141555 . 1 . N/A protein_coding N/A Histone-fold domain containing protein. (Os01t0102400-01) N/A N/A N/A Os01g0102400 gene:Os01g0102400 irgspv1.0-20170804-genes HAP5H SUBUNIT OF CCAAT-BOX BINDING COMPLEX N/A N/A N/A N/A +1 irgsp mRNA 139826 141555 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102400-01 N/A N/A gene:Os01g0102400 N/A N/A Os01t0102400-01 +1 irgsp exon 139826 139906 . 1 . N/A N/A 1 N/A -1 -1 Os01t0102400-01.exon1 N/A Os01t0102400-01.exon1 N/A Os01t0102400-01.exon1 transcript:Os01t0102400-01 N/A 1 N/A +1 irgsp exon 140120 141555 . 1 . N/A N/A 1 N/A -1 -1 Os01t0102400-01.exon2 N/A Os01t0102400-01.exon2 N/A Os01t0102400-01.exon2 transcript:Os01t0102400-01 N/A 2 N/A +1 irgsp CDS 140150 141415 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102400-01 N/A N/A transcript:Os01t0102400-01 Os01t0102400-01 N/A N/A +1 irgsp five_prime_UTR 139826 139906 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-27 N/A N/A transcript:Os01t0102400-01 N/A N/A N/A +1 irgsp five_prime_UTR 140120 140149 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-28 N/A N/A transcript:Os01t0102400-01 N/A N/A N/A +1 irgsp three_prime_UTR 141416 141555 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-27 N/A N/A transcript:Os01t0102400-01 N/A N/A N/A +1 irgsp gene 141959 144554 . 1 . N/A protein_coding N/A Conserved hypothetical protein. (Os01t0102500-01) N/A N/A N/A Os01g0102500 gene:Os01g0102500 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 141959 144554 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102500-01 N/A N/A gene:Os01g0102500 N/A N/A Os01t0102500-01 +1 irgsp exon 141959 142631 . 1 . N/A N/A 1 N/A 2 -1 Os01t0102500-01.exon1 N/A Os01t0102500-01.exon1 N/A Os01t0102500-01.exon1 transcript:Os01t0102500-01 N/A 1 N/A +1 irgsp exon 143191 143431 . 1 . N/A N/A 1 N/A 0 2 Os01t0102500-01.exon2 N/A Os01t0102500-01.exon2 N/A Os01t0102500-01.exon2 transcript:Os01t0102500-01 N/A 2 N/A +1 irgsp exon 143563 143680 . 1 . N/A N/A 1 N/A 1 0 Os01t0102500-01.exon3 N/A Os01t0102500-01.exon3 N/A Os01t0102500-01.exon3 transcript:Os01t0102500-01 N/A 3 N/A +1 irgsp exon 143817 144554 . 1 . N/A N/A 1 N/A -1 1 Os01t0102500-01.exon4 N/A Os01t0102500-01.exon4 N/A Os01t0102500-01.exon4 transcript:Os01t0102500-01 N/A 4 N/A +1 irgsp CDS 142084 142631 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102500-01 N/A N/A transcript:Os01t0102500-01 Os01t0102500-01 N/A N/A +1 irgsp CDS 143191 143431 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102500-01 N/A N/A transcript:Os01t0102500-01 Os01t0102500-01 N/A N/A +1 irgsp CDS 143563 143680 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102500-01 N/A N/A transcript:Os01t0102500-01 Os01t0102500-01 N/A N/A +1 irgsp CDS 143817 143908 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102500-01 N/A N/A transcript:Os01t0102500-01 Os01t0102500-01 N/A N/A +1 irgsp five_prime_UTR 141959 142083 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-29 N/A N/A transcript:Os01t0102500-01 N/A N/A N/A +1 irgsp three_prime_UTR 143909 144554 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-28 N/A N/A transcript:Os01t0102500-01 N/A N/A N/A +1 irgsp gene 145603 147847 . 1 . N/A protein_coding N/A Shikimate kinase domain containing protein. (Os01t0102600-01);Similar to shikimate kinase family protein. (Os01t0102600-02) N/A N/A N/A Os01g0102600 gene:Os01g0102600 irgspv1.0-20170804-genes Shikimate kinase 4 N/A N/A N/A N/A +1 irgsp mRNA 145603 147847 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102600-01 N/A N/A gene:Os01g0102600 N/A N/A Os01t0102600-01 +1 irgsp exon 145603 145786 . 1 . N/A N/A 0 N/A 1 -1 Os01t0102600-01.exon1 N/A Os01t0102600-01.exon1 N/A Os01t0102600-01.exon1 transcript:Os01t0102600-01 N/A 1 N/A +1 irgsp exon 145905 145951 . 1 . N/A N/A 0 N/A 0 1 Os01t0102600-01.exon2 N/A Os01t0102600-01.exon2 N/A Os01t0102600-01.exon2 transcript:Os01t0102600-01 N/A 2 N/A +1 irgsp exon 146028 146082 . 1 . N/A N/A 0 N/A 1 0 Os01t0102600-01.exon3 N/A Os01t0102600-01.exon3 N/A Os01t0102600-01.exon3 transcript:Os01t0102600-01 N/A 3 N/A +1 irgsp exon 146179 146339 . 1 . N/A N/A 0 N/A 0 1 Os01t0102600-01.exon4 N/A Os01t0102600-01.exon4 N/A Os01t0102600-01.exon4 transcript:Os01t0102600-01 N/A 4 N/A +1 irgsp exon 146450 146532 . 1 . N/A N/A 0 N/A 2 0 Os01t0102600-01.exon5 N/A Os01t0102600-01.exon5 N/A Os01t0102600-01.exon5 transcript:Os01t0102600-01 N/A 5 N/A +1 irgsp exon 146611 146719 . 1 . N/A N/A 0 N/A 0 2 Os01t0102600-01.exon6 N/A Os01t0102600-01.exon6 N/A Os01t0102600-01.exon6 transcript:Os01t0102600-01 N/A 6 N/A +1 irgsp exon 147106 147184 . 1 . N/A N/A 0 N/A 1 0 Os01t0102600-01.exon7 N/A Os01t0102600-01.exon7 N/A Os01t0102600-01.exon7 transcript:Os01t0102600-01 N/A 7 N/A +1 irgsp exon 147311 147375 . 1 . N/A N/A 1 N/A 0 1 Os01t0102600-02.exon2 N/A Os01t0102600-02.exon2 N/A Os01t0102600-02.exon2 transcript:Os01t0102600-01 N/A 8 N/A +1 irgsp exon 147507 147847 . 1 . N/A N/A 0 N/A -1 0 Os01t0102600-01.exon9 N/A Os01t0102600-01.exon9 N/A Os01t0102600-01.exon9 transcript:Os01t0102600-01 N/A 9 N/A +1 irgsp CDS 145645 145786 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp CDS 145905 145951 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp CDS 146028 146082 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp CDS 146179 146339 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp CDS 146450 146532 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp CDS 146611 146719 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp CDS 147106 147184 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp CDS 147311 147375 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp CDS 147507 147575 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-01 N/A N/A transcript:Os01t0102600-01 Os01t0102600-01 N/A N/A +1 irgsp five_prime_UTR 145603 145644 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-30 N/A N/A transcript:Os01t0102600-01 N/A N/A N/A +1 irgsp three_prime_UTR 147576 147847 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-29 N/A N/A transcript:Os01t0102600-01 N/A N/A N/A +1 irgsp mRNA 147104 147805 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102600-02 N/A N/A gene:Os01g0102600 N/A N/A Os01t0102600-02 +1 irgsp exon 147104 147184 . 1 . N/A N/A 0 N/A 1 -1 Os01t0102600-02.exon1 N/A Os01t0102600-02.exon1 N/A Os01t0102600-02.exon1 transcript:Os01t0102600-02 N/A 1 N/A +1 irgsp exon 147311 147375 . 1 . N/A N/A 1 N/A 0 1 Os01t0102600-02.exon2 N/A agat-exon-4 N/A Os01t0102600-02.exon2 transcript:Os01t0102600-02 N/A 2 N/A +1 irgsp exon 147507 147805 . 1 . N/A N/A 0 N/A -1 0 Os01t0102600-02.exon3 N/A Os01t0102600-02.exon3 N/A Os01t0102600-02.exon3 transcript:Os01t0102600-02 N/A 3 N/A +1 irgsp CDS 147106 147184 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-02 N/A N/A transcript:Os01t0102600-02 Os01t0102600-02 N/A N/A +1 irgsp CDS 147311 147375 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-02 N/A N/A transcript:Os01t0102600-02 Os01t0102600-02 N/A N/A +1 irgsp CDS 147507 147575 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102600-02 N/A N/A transcript:Os01t0102600-02 Os01t0102600-02 N/A N/A +1 irgsp five_prime_UTR 147104 147105 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-31 N/A N/A transcript:Os01t0102600-02 N/A N/A N/A +1 irgsp three_prime_UTR 147576 147805 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-30 N/A N/A transcript:Os01t0102600-02 N/A N/A N/A +1 irgsp gene 148085 150568 . 1 . N/A protein_coding N/A Translocon-associated beta family protein. (Os01t0102700-01) N/A N/A N/A Os01g0102700 gene:Os01g0102700 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 148085 150568 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102700-01 N/A N/A gene:Os01g0102700 N/A N/A Os01t0102700-01 +1 irgsp exon 148085 148313 . 1 . N/A N/A 1 N/A 2 -1 Os01t0102700-01.exon1 N/A Os01t0102700-01.exon1 N/A Os01t0102700-01.exon1 transcript:Os01t0102700-01 N/A 1 N/A +1 irgsp exon 149450 149548 . 1 . N/A N/A 1 N/A 2 2 Os01t0102700-01.exon2 N/A Os01t0102700-01.exon2 N/A Os01t0102700-01.exon2 transcript:Os01t0102700-01 N/A 2 N/A +1 irgsp exon 149634 149742 . 1 . N/A N/A 1 N/A 0 2 Os01t0102700-01.exon3 N/A Os01t0102700-01.exon3 N/A Os01t0102700-01.exon3 transcript:Os01t0102700-01 N/A 3 N/A +1 irgsp exon 149856 149931 . 1 . N/A N/A 1 N/A 1 0 Os01t0102700-01.exon4 N/A Os01t0102700-01.exon4 N/A Os01t0102700-01.exon4 transcript:Os01t0102700-01 N/A 4 N/A +1 irgsp exon 150152 150568 . 1 . N/A N/A 1 N/A -1 1 Os01t0102700-01.exon5 N/A Os01t0102700-01.exon5 N/A Os01t0102700-01.exon5 transcript:Os01t0102700-01 N/A 5 N/A +1 irgsp CDS 148147 148313 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102700-01 N/A N/A transcript:Os01t0102700-01 Os01t0102700-01 N/A N/A +1 irgsp CDS 149450 149548 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102700-01 N/A N/A transcript:Os01t0102700-01 Os01t0102700-01 N/A N/A +1 irgsp CDS 149634 149742 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102700-01 N/A N/A transcript:Os01t0102700-01 Os01t0102700-01 N/A N/A +1 irgsp CDS 149856 149931 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102700-01 N/A N/A transcript:Os01t0102700-01 Os01t0102700-01 N/A N/A +1 irgsp CDS 150152 150318 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102700-01 N/A N/A transcript:Os01t0102700-01 Os01t0102700-01 N/A N/A +1 irgsp five_prime_UTR 148085 148146 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-32 N/A N/A transcript:Os01t0102700-01 N/A N/A N/A +1 irgsp three_prime_UTR 150319 150568 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-31 N/A N/A transcript:Os01t0102700-01 N/A N/A N/A +1 irgsp gene 152853 156449 . 1 . N/A protein_coding N/A Similar to chromatin remodeling complex subunit. (Os01t0102800-01) N/A N/A N/A Os01g0102800 gene:Os01g0102800 irgspv1.0-20170804-genes Cockayne syndrome WD-repeat protein N/A N/A N/A N/A +1 irgsp mRNA 152853 156449 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102800-01 N/A N/A gene:Os01g0102800 N/A N/A Os01t0102800-01 +1 irgsp exon 152853 153025 . 1 . N/A N/A 1 N/A 1 -1 Os01t0102800-01.exon1 N/A Os01t0102800-01.exon1 N/A Os01t0102800-01.exon1 transcript:Os01t0102800-01 N/A 1 N/A +1 irgsp exon 153178 154646 . 1 . N/A N/A 1 N/A 0 1 Os01t0102800-01.exon2 N/A Os01t0102800-01.exon2 N/A Os01t0102800-01.exon2 transcript:Os01t0102800-01 N/A 2 N/A +1 irgsp exon 155010 155450 . 1 . N/A N/A 1 N/A 0 0 Os01t0102800-01.exon3 N/A Os01t0102800-01.exon3 N/A Os01t0102800-01.exon3 transcript:Os01t0102800-01 N/A 3 N/A +1 irgsp exon 155543 156449 . 1 . N/A N/A 1 N/A -1 0 Os01t0102800-01.exon4 N/A Os01t0102800-01.exon4 N/A Os01t0102800-01.exon4 transcript:Os01t0102800-01 N/A 4 N/A +1 irgsp CDS 152854 153025 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102800-01 N/A N/A transcript:Os01t0102800-01 Os01t0102800-01 N/A N/A +1 irgsp CDS 153178 154646 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102800-01 N/A N/A transcript:Os01t0102800-01 Os01t0102800-01 N/A N/A +1 irgsp CDS 155010 155450 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102800-01 N/A N/A transcript:Os01t0102800-01 Os01t0102800-01 N/A N/A +1 irgsp CDS 155543 156214 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102800-01 N/A N/A transcript:Os01t0102800-01 Os01t0102800-01 N/A N/A +1 irgsp five_prime_UTR 152853 152853 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-33 N/A N/A transcript:Os01t0102800-01 N/A N/A N/A +1 irgsp three_prime_UTR 156215 156449 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-32 N/A N/A transcript:Os01t0102800-01 N/A N/A N/A +1 irgsp gene 164577 168921 . 1 . N/A protein_coding N/A Similar to nitrilase 2. (Os01t0102850-00) N/A N/A N/A Os01g0102850 gene:Os01g0102850 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 164577 168921 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102850-00 N/A N/A gene:Os01g0102850 N/A N/A Os01t0102850-00 +1 irgsp exon 164577 164905 . 1 . N/A N/A 1 N/A -1 -1 Os01t0102850-00.exon1 N/A Os01t0102850-00.exon1 N/A Os01t0102850-00.exon1 transcript:Os01t0102850-00 N/A 1 N/A +1 irgsp exon 168499 168921 . 1 . N/A N/A 1 N/A 0 -1 Os01t0102850-00.exon2 N/A Os01t0102850-00.exon2 N/A Os01t0102850-00.exon2 transcript:Os01t0102850-00 N/A 2 N/A +1 irgsp CDS 168805 168921 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102850-00 N/A N/A transcript:Os01t0102850-00 Os01t0102850-00 N/A N/A +1 irgsp five_prime_UTR 164577 164905 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-34 N/A N/A transcript:Os01t0102850-00 N/A N/A N/A +1 irgsp five_prime_UTR 168499 168804 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-35 N/A N/A transcript:Os01t0102850-00 N/A N/A N/A +1 irgsp gene 169390 170316 . -1 . N/A protein_coding N/A Light-regulated protein, Regulation of light-dependent attachment of LEAF-TYPE FERREDOXIN-NADP+ OXIDOREDUCTASE (LFNR) to the thylakoid membrane (Os01t0102900-01) N/A N/A N/A Os01g0102900 gene:Os01g0102900 irgspv1.0-20170804-genes LIGHT-REGULATED GENE 1 N/A N/A N/A N/A +1 irgsp mRNA 169390 170316 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0102900-01 N/A N/A gene:Os01g0102900 N/A N/A Os01t0102900-01 +1 irgsp exon 169390 169656 . -1 . N/A N/A 1 N/A -1 2 Os01t0102900-01.exon3 N/A Os01t0102900-01.exon3 N/A Os01t0102900-01.exon3 transcript:Os01t0102900-01 N/A 3 N/A +1 irgsp exon 169751 169909 . -1 . N/A N/A 1 N/A 2 2 Os01t0102900-01.exon2 N/A Os01t0102900-01.exon2 N/A Os01t0102900-01.exon2 transcript:Os01t0102900-01 N/A 2 N/A +1 irgsp exon 170091 170316 . -1 . N/A N/A 1 N/A 2 -1 Os01t0102900-01.exon1 N/A Os01t0102900-01.exon1 N/A Os01t0102900-01.exon1 transcript:Os01t0102900-01 N/A 1 N/A +1 irgsp CDS 169599 169656 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102900-01 N/A N/A transcript:Os01t0102900-01 Os01t0102900-01 N/A N/A +1 irgsp CDS 169751 169909 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102900-01 N/A N/A transcript:Os01t0102900-01 Os01t0102900-01 N/A N/A +1 irgsp CDS 170091 170260 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0102900-01 N/A N/A transcript:Os01t0102900-01 Os01t0102900-01 N/A N/A +1 irgsp five_prime_UTR 170261 170316 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-36 N/A N/A transcript:Os01t0102900-01 N/A N/A N/A +1 irgsp three_prime_UTR 169390 169598 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-33 N/A N/A transcript:Os01t0102900-01 N/A N/A N/A +1 irgsp gene 170798 173144 . -1 . N/A protein_coding N/A Snf7 family protein. (Os01t0103000-01) N/A N/A N/A Os01g0103000 gene:Os01g0103000 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 170798 173144 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103000-01 N/A N/A gene:Os01g0103000 N/A N/A Os01t0103000-01 +1 irgsp exon 170798 171095 . -1 . N/A N/A 1 N/A -1 0 Os01t0103000-01.exon7 N/A Os01t0103000-01.exon7 N/A Os01t0103000-01.exon7 transcript:Os01t0103000-01 N/A 7 N/A +1 irgsp exon 171406 171554 . -1 . N/A N/A 1 N/A 0 1 Os01t0103000-01.exon6 N/A Os01t0103000-01.exon6 N/A Os01t0103000-01.exon6 transcript:Os01t0103000-01 N/A 6 N/A +1 irgsp exon 171764 171875 . -1 . N/A N/A 1 N/A 1 0 Os01t0103000-01.exon5 N/A Os01t0103000-01.exon5 N/A Os01t0103000-01.exon5 transcript:Os01t0103000-01 N/A 5 N/A +1 irgsp exon 172398 172469 . -1 . N/A N/A 1 N/A 0 0 Os01t0103000-01.exon4 N/A Os01t0103000-01.exon4 N/A Os01t0103000-01.exon4 transcript:Os01t0103000-01 N/A 4 N/A +1 irgsp exon 172578 172671 . -1 . N/A N/A 1 N/A 0 2 Os01t0103000-01.exon3 N/A Os01t0103000-01.exon3 N/A Os01t0103000-01.exon3 transcript:Os01t0103000-01 N/A 3 N/A +1 irgsp exon 172770 172921 . -1 . N/A N/A 1 N/A 2 0 Os01t0103000-01.exon2 N/A Os01t0103000-01.exon2 N/A Os01t0103000-01.exon2 transcript:Os01t0103000-01 N/A 2 N/A +1 irgsp exon 173004 173144 . -1 . N/A N/A 1 N/A 0 -1 Os01t0103000-01.exon1 N/A Os01t0103000-01.exon1 N/A Os01t0103000-01.exon1 transcript:Os01t0103000-01 N/A 1 N/A +1 irgsp CDS 171045 171095 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103000-01 N/A N/A transcript:Os01t0103000-01 Os01t0103000-01 N/A N/A +1 irgsp CDS 171406 171554 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103000-01 N/A N/A transcript:Os01t0103000-01 Os01t0103000-01 N/A N/A +1 irgsp CDS 171764 171875 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103000-01 N/A N/A transcript:Os01t0103000-01 Os01t0103000-01 N/A N/A +1 irgsp CDS 172398 172469 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103000-01 N/A N/A transcript:Os01t0103000-01 Os01t0103000-01 N/A N/A +1 irgsp CDS 172578 172671 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103000-01 N/A N/A transcript:Os01t0103000-01 Os01t0103000-01 N/A N/A +1 irgsp CDS 172770 172921 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103000-01 N/A N/A transcript:Os01t0103000-01 Os01t0103000-01 N/A N/A +1 irgsp CDS 173004 173072 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103000-01 N/A N/A transcript:Os01t0103000-01 Os01t0103000-01 N/A N/A +1 irgsp five_prime_UTR 173073 173144 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-37 N/A N/A transcript:Os01t0103000-01 N/A N/A N/A +1 irgsp three_prime_UTR 170798 171044 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-34 N/A N/A transcript:Os01t0103000-01 N/A N/A N/A +1 irgsp gene 178607 180575 . 1 . N/A protein_coding N/A TGF-beta receptor, type I/II extracellular region family protein. (Os01t0103100-01);Similar to predicted protein. (Os01t0103100-02) N/A N/A N/A Os01g0103100 gene:Os01g0103100 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 178607 180548 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103100-01 N/A N/A gene:Os01g0103100 N/A N/A Os01t0103100-01 +1 irgsp exon 178607 180548 . 1 . N/A N/A 0 N/A -1 -1 Os01t0103100-01.exon1 N/A Os01t0103100-01.exon1 N/A Os01t0103100-01.exon1 transcript:Os01t0103100-01 N/A 1 N/A +1 irgsp CDS 178642 180462 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103100-01 N/A N/A transcript:Os01t0103100-01 Os01t0103100-01 N/A N/A +1 irgsp five_prime_UTR 178607 178641 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-38 N/A N/A transcript:Os01t0103100-01 N/A N/A N/A +1 irgsp three_prime_UTR 180463 180548 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-35 N/A N/A transcript:Os01t0103100-01 N/A N/A N/A +1 irgsp mRNA 178652 180575 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103100-02 N/A N/A gene:Os01g0103100 N/A N/A Os01t0103100-02 +1 irgsp exon 178652 180575 . 1 . N/A N/A 0 N/A -1 -1 Os01t0103100-02.exon1 N/A Os01t0103100-02.exon1 N/A Os01t0103100-02.exon1 transcript:Os01t0103100-02 N/A 1 N/A +1 irgsp CDS 178678 180462 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103100-02 N/A N/A transcript:Os01t0103100-02 Os01t0103100-02 N/A N/A +1 irgsp five_prime_UTR 178652 178677 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-39 N/A N/A transcript:Os01t0103100-02 N/A N/A N/A +1 irgsp three_prime_UTR 180463 180575 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-36 N/A N/A transcript:Os01t0103100-02 N/A N/A N/A +1 irgsp gene 178815 180433 . -1 . N/A protein_coding N/A Hypothetical protein. (Os01t0103075-00) N/A N/A N/A Os01g0103075 gene:Os01g0103075 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 178815 180433 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103075-00 N/A N/A gene:Os01g0103075 N/A N/A Os01t0103075-00 +1 irgsp exon 178815 180433 . -1 . N/A N/A 1 N/A -1 -1 Os01t0103075-00.exon1 N/A Os01t0103075-00.exon1 N/A Os01t0103075-00.exon1 transcript:Os01t0103075-00 N/A 1 N/A +1 irgsp CDS 179512 180054 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103075-00 N/A N/A transcript:Os01t0103075-00 Os01t0103075-00 N/A N/A +1 irgsp five_prime_UTR 180055 180433 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-40 N/A N/A transcript:Os01t0103075-00 N/A N/A N/A +1 irgsp three_prime_UTR 178815 179511 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-37 N/A N/A transcript:Os01t0103075-00 N/A N/A N/A +1 Ensembl_Plants ncRNA_gene 182074 182154 . 1 . N/A tRNA N/A tRNA-Leu for anticodon AAG N/A N/A N/A ENSRNA049442722 gene:ENSRNA049442722 trnascan_gene tRNA-Leu N/A N/A N/A N/A +1 Ensembl_Plants tRNA 182074 182154 . 1 . N/A tRNA N/A N/A N/A N/A N/A N/A transcript:ENSRNA049442722-T1 N/A N/A gene:ENSRNA049442722 N/A N/A ENSRNA049442722-T1 +1 Ensembl_Plants exon 182074 182154 . 1 . N/A N/A 1 N/A -1 -1 ENSRNA049442722-E1 N/A ENSRNA049442722-E1 N/A ENSRNA049442722-E1 transcript:ENSRNA049442722-T1 N/A 1 N/A +1 irgsp gene 185189 185828 . -1 . N/A protein_coding N/A Hypothetical gene. (Os01t0103400-01) N/A N/A N/A Os01g0103400 gene:Os01g0103400 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 185189 185828 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103400-01 N/A N/A gene:Os01g0103400 N/A N/A Os01t0103400-01 +1 irgsp exon 185189 185828 . -1 . N/A N/A 1 N/A -1 -1 Os01t0103400-01.exon1 N/A Os01t0103400-01.exon1 N/A Os01t0103400-01.exon1 transcript:Os01t0103400-01 N/A 1 N/A +1 irgsp CDS 185435 185827 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103400-01 N/A N/A transcript:Os01t0103400-01 Os01t0103400-01 N/A N/A +1 irgsp five_prime_UTR 185828 185828 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-41 N/A N/A transcript:Os01t0103400-01 N/A N/A N/A +1 irgsp three_prime_UTR 185189 185434 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-38 N/A N/A transcript:Os01t0103400-01 N/A N/A N/A +1 irgsp repeat_region 186000 186100 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A fakeRepeat2 N/A N/A N/A N/A N/A N/A +1 irgsp gene 186250 190904 . -1 . N/A protein_coding N/A Similar to sterol-8,7-isomerase. (Os01t0103600-01);Emopamil-binding family protein. (Os01t0103600-02) N/A N/A N/A Os01g0103600 gene:Os01g0103600 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 186250 190262 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103600-02 N/A N/A gene:Os01g0103600 N/A N/A Os01t0103600-02 +1 irgsp exon 186250 186771 . -1 . N/A N/A 0 N/A -1 2 Os01t0103600-02.exon4 N/A Os01t0103600-02.exon4 N/A Os01t0103600-02.exon4 transcript:Os01t0103600-02 N/A 4 N/A +1 irgsp exon 189607 189715 . -1 . N/A N/A 0 N/A 2 1 Os01t0103600-02.exon3 N/A Os01t0103600-02.exon3 N/A Os01t0103600-02.exon3 transcript:Os01t0103600-02 N/A 3 N/A +1 irgsp exon 189841 189990 . -1 . N/A N/A 1 N/A 1 1 Os01t0103600-02.exon2 N/A Os01t0103600-02.exon2 N/A Os01t0103600-02.exon2 transcript:Os01t0103600-02 N/A 2 N/A +1 irgsp exon 190087 190262 . -1 . N/A N/A 0 N/A 1 -1 Os01t0103600-02.exon1 N/A Os01t0103600-02.exon1 N/A Os01t0103600-02.exon1 transcript:Os01t0103600-02 N/A 1 N/A +1 irgsp CDS 186516 186771 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103600-02 N/A N/A transcript:Os01t0103600-02 Os01t0103600-02 N/A N/A +1 irgsp CDS 189607 189715 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103600-02 N/A N/A transcript:Os01t0103600-02 Os01t0103600-02 N/A N/A +1 irgsp CDS 189841 189990 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103600-02 N/A N/A transcript:Os01t0103600-02 Os01t0103600-02 N/A N/A +1 irgsp CDS 190087 190231 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103600-02 N/A N/A transcript:Os01t0103600-02 Os01t0103600-02 N/A N/A +1 irgsp five_prime_UTR 190232 190262 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-42 N/A N/A transcript:Os01t0103600-02 N/A N/A N/A +1 irgsp three_prime_UTR 186250 186515 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-39 N/A N/A transcript:Os01t0103600-02 N/A N/A N/A +1 irgsp mRNA 187345 190904 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103600-01 N/A N/A gene:Os01g0103600 N/A N/A Os01t0103600-01 +1 irgsp exon 187345 189715 . -1 . N/A N/A 0 N/A -1 1 Os01t0103600-01.exon3 N/A Os01t0103600-01.exon3 N/A Os01t0103600-01.exon3 transcript:Os01t0103600-01 N/A 3 N/A +1 irgsp exon 189841 189990 . -1 . N/A N/A 1 N/A 1 1 Os01t0103600-02.exon2 N/A agat-exon-5 N/A Os01t0103600-02.exon2 transcript:Os01t0103600-01 N/A 2 N/A +1 irgsp exon 190087 190904 . -1 . N/A N/A 0 N/A 1 -1 Os01t0103600-01.exon1 N/A Os01t0103600-01.exon1 N/A Os01t0103600-01.exon1 transcript:Os01t0103600-01 N/A 1 N/A +1 irgsp CDS 189396 189715 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103600-01 N/A N/A transcript:Os01t0103600-01 Os01t0103600-01 N/A N/A +1 irgsp CDS 189841 189990 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103600-01 N/A N/A transcript:Os01t0103600-01 Os01t0103600-01 N/A N/A +1 irgsp CDS 190087 190231 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103600-01 N/A N/A transcript:Os01t0103600-01 Os01t0103600-01 N/A N/A +1 irgsp five_prime_UTR 190232 190904 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-43 N/A N/A transcript:Os01t0103600-01 N/A N/A N/A +1 irgsp three_prime_UTR 187345 189395 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-40 N/A N/A transcript:Os01t0103600-01 N/A N/A N/A +1 irgsp gene 187545 188586 . 1 . N/A protein_coding N/A Hypothetical gene. (Os01t0103650-00) N/A N/A N/A Os01g0103650 gene:Os01g0103650 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 187545 188586 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103650-00 N/A N/A gene:Os01g0103650 N/A N/A Os01t0103650-00 +1 irgsp exon 187545 188020 . 1 . N/A N/A 1 N/A -1 -1 Os01t0103650-00.exon1 N/A Os01t0103650-00.exon1 N/A Os01t0103650-00.exon1 transcript:Os01t0103650-00 N/A 1 N/A +1 irgsp exon 188060 188385 . 1 . N/A N/A 1 N/A -1 -1 Os01t0103650-00.exon2 N/A Os01t0103650-00.exon2 N/A Os01t0103650-00.exon2 transcript:Os01t0103650-00 N/A 2 N/A +1 irgsp exon 188455 188586 . 1 . N/A N/A 1 N/A -1 -1 Os01t0103650-00.exon3 N/A Os01t0103650-00.exon3 N/A Os01t0103650-00.exon3 transcript:Os01t0103650-00 N/A 3 N/A +1 irgsp CDS 187547 187768 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103650-00 N/A N/A transcript:Os01t0103650-00 Os01t0103650-00 N/A N/A +1 irgsp five_prime_UTR 187545 187546 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-44 N/A N/A transcript:Os01t0103650-00 N/A N/A N/A +1 irgsp three_prime_UTR 187769 188020 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-41 N/A N/A transcript:Os01t0103650-00 N/A N/A N/A +1 irgsp three_prime_UTR 188060 188385 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-42 N/A N/A transcript:Os01t0103650-00 N/A N/A N/A +1 irgsp three_prime_UTR 188455 188586 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-43 N/A N/A transcript:Os01t0103650-00 N/A N/A N/A +1 irgsp gene 191037 196287 . 1 . N/A protein_coding N/A Conserved hypothetical protein. (Os01t0103700-01) N/A N/A N/A Os01g0103700 gene:Os01g0103700 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 191037 196287 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103700-01 N/A N/A gene:Os01g0103700 N/A N/A Os01t0103700-01 +1 irgsp exon 191037 191161 . 1 . N/A N/A 1 N/A -1 -1 Os01t0103700-01.exon1 N/A Os01t0103700-01.exon1 N/A Os01t0103700-01.exon1 transcript:Os01t0103700-01 N/A 1 N/A +1 irgsp exon 191625 191705 . 1 . N/A N/A 1 N/A 0 -1 Os01t0103700-01.exon2 N/A Os01t0103700-01.exon2 N/A Os01t0103700-01.exon2 transcript:Os01t0103700-01 N/A 2 N/A +1 irgsp exon 192399 192506 . 1 . N/A N/A 1 N/A 0 0 Os01t0103700-01.exon3 N/A Os01t0103700-01.exon3 N/A Os01t0103700-01.exon3 transcript:Os01t0103700-01 N/A 3 N/A +1 irgsp exon 192958 193161 . 1 . N/A N/A 1 N/A 0 0 Os01t0103700-01.exon4 N/A Os01t0103700-01.exon4 N/A Os01t0103700-01.exon4 transcript:Os01t0103700-01 N/A 4 N/A +1 irgsp exon 193248 193356 . 1 . N/A N/A 1 N/A 1 0 Os01t0103700-01.exon5 N/A Os01t0103700-01.exon5 N/A Os01t0103700-01.exon5 transcript:Os01t0103700-01 N/A 5 N/A +1 irgsp exon 193434 196287 . 1 . N/A N/A 1 N/A -1 1 Os01t0103700-01.exon6 N/A Os01t0103700-01.exon6 N/A Os01t0103700-01.exon6 transcript:Os01t0103700-01 N/A 6 N/A +1 irgsp CDS 191694 191705 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103700-01 N/A N/A transcript:Os01t0103700-01 Os01t0103700-01 N/A N/A +1 irgsp CDS 192399 192506 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103700-01 N/A N/A transcript:Os01t0103700-01 Os01t0103700-01 N/A N/A +1 irgsp CDS 192958 193161 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103700-01 N/A N/A transcript:Os01t0103700-01 Os01t0103700-01 N/A N/A +1 irgsp CDS 193248 193356 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103700-01 N/A N/A transcript:Os01t0103700-01 Os01t0103700-01 N/A N/A +1 irgsp CDS 193434 193507 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103700-01 N/A N/A transcript:Os01t0103700-01 Os01t0103700-01 N/A N/A +1 irgsp five_prime_UTR 191037 191161 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-45 N/A N/A transcript:Os01t0103700-01 N/A N/A N/A +1 irgsp five_prime_UTR 191625 191693 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-46 N/A N/A transcript:Os01t0103700-01 N/A N/A N/A +1 irgsp three_prime_UTR 193508 196287 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-44 N/A N/A transcript:Os01t0103700-01 N/A N/A N/A +1 irgsp gene 197647 200803 . 1 . N/A protein_coding N/A Conserved hypothetical protein. (Os01t0103800-01) N/A N/A N/A Os01g0103800 gene:Os01g0103800 irgspv1.0-20170804-genes OsDW1-01g N/A N/A N/A N/A +1 irgsp mRNA 197647 200803 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103800-01 N/A N/A gene:Os01g0103800 N/A N/A Os01t0103800-01 +1 irgsp exon 197647 197838 . 1 . N/A N/A 1 N/A -1 -1 Os01t0103800-01.exon1 N/A Os01t0103800-01.exon1 N/A Os01t0103800-01.exon1 transcript:Os01t0103800-01 N/A 1 N/A +1 irgsp exon 198034 198225 . 1 . N/A N/A 1 N/A 0 -1 Os01t0103800-01.exon2 N/A Os01t0103800-01.exon2 N/A Os01t0103800-01.exon2 transcript:Os01t0103800-01 N/A 2 N/A +1 irgsp exon 198830 200036 . 1 . N/A N/A 1 N/A 1 0 Os01t0103800-01.exon3 N/A Os01t0103800-01.exon3 N/A Os01t0103800-01.exon3 transcript:Os01t0103800-01 N/A 3 N/A +1 irgsp exon 200253 200803 . 1 . N/A N/A 1 N/A -1 1 Os01t0103800-01.exon4 N/A Os01t0103800-01.exon4 N/A Os01t0103800-01.exon4 transcript:Os01t0103800-01 N/A 4 N/A +1 irgsp CDS 198130 198225 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103800-01 N/A N/A transcript:Os01t0103800-01 Os01t0103800-01 N/A N/A +1 irgsp CDS 198830 200036 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103800-01 N/A N/A transcript:Os01t0103800-01 Os01t0103800-01 N/A N/A +1 irgsp CDS 200253 200479 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103800-01 N/A N/A transcript:Os01t0103800-01 Os01t0103800-01 N/A N/A +1 irgsp five_prime_UTR 197647 197838 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-47 N/A N/A transcript:Os01t0103800-01 N/A N/A N/A +1 irgsp five_prime_UTR 198034 198129 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-48 N/A N/A transcript:Os01t0103800-01 N/A N/A N/A +1 irgsp three_prime_UTR 200480 200803 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-45 N/A N/A transcript:Os01t0103800-01 N/A N/A N/A +1 irgsp gene 201944 206202 . 1 . N/A protein_coding N/A Polynucleotidyl transferase, Ribonuclease H fold domain containing protein. (Os01t0103900-01) N/A N/A N/A Os01g0103900 gene:Os01g0103900 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 201944 206202 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0103900-01 N/A N/A gene:Os01g0103900 N/A N/A Os01t0103900-01 +1 irgsp exon 201944 202110 . 1 . N/A N/A 1 N/A 0 -1 Os01t0103900-01.exon1 N/A Os01t0103900-01.exon1 N/A Os01t0103900-01.exon1 transcript:Os01t0103900-01 N/A 1 N/A +1 irgsp exon 202252 202359 . 1 . N/A N/A 1 N/A 0 0 Os01t0103900-01.exon2 N/A Os01t0103900-01.exon2 N/A Os01t0103900-01.exon2 transcript:Os01t0103900-01 N/A 2 N/A +1 irgsp exon 203007 203127 . 1 . N/A N/A 1 N/A 1 0 Os01t0103900-01.exon3 N/A Os01t0103900-01.exon3 N/A Os01t0103900-01.exon3 transcript:Os01t0103900-01 N/A 3 N/A +1 irgsp exon 203302 203429 . 1 . N/A N/A 1 N/A 0 1 Os01t0103900-01.exon4 N/A Os01t0103900-01.exon4 N/A Os01t0103900-01.exon4 transcript:Os01t0103900-01 N/A 4 N/A +1 irgsp exon 203511 203658 . 1 . N/A N/A 1 N/A 1 0 Os01t0103900-01.exon5 N/A Os01t0103900-01.exon5 N/A Os01t0103900-01.exon5 transcript:Os01t0103900-01 N/A 5 N/A +1 irgsp exon 203760 203938 . 1 . N/A N/A 1 N/A 0 1 Os01t0103900-01.exon6 N/A Os01t0103900-01.exon6 N/A Os01t0103900-01.exon6 transcript:Os01t0103900-01 N/A 6 N/A +1 irgsp exon 204203 204440 . 1 . N/A N/A 1 N/A 1 0 Os01t0103900-01.exon7 N/A Os01t0103900-01.exon7 N/A Os01t0103900-01.exon7 transcript:Os01t0103900-01 N/A 7 N/A +1 irgsp exon 204543 204635 . 1 . N/A N/A 1 N/A 1 1 Os01t0103900-01.exon8 N/A Os01t0103900-01.exon8 N/A Os01t0103900-01.exon8 transcript:Os01t0103900-01 N/A 8 N/A +1 irgsp exon 204730 204875 . 1 . N/A N/A 1 N/A 0 1 Os01t0103900-01.exon9 N/A Os01t0103900-01.exon9 N/A Os01t0103900-01.exon9 transcript:Os01t0103900-01 N/A 9 N/A +1 irgsp exon 205042 205149 . 1 . N/A N/A 1 N/A 0 0 Os01t0103900-01.exon10 N/A Os01t0103900-01.exon10 N/A Os01t0103900-01.exon10 transcript:Os01t0103900-01 N/A 10 N/A +1 irgsp exon 205290 205378 . 1 . N/A N/A 1 N/A 2 0 Os01t0103900-01.exon11 N/A Os01t0103900-01.exon11 N/A Os01t0103900-01.exon11 transcript:Os01t0103900-01 N/A 11 N/A +1 irgsp exon 205534 206202 . 1 . N/A N/A 1 N/A -1 2 Os01t0103900-01.exon12 N/A Os01t0103900-01.exon12 N/A Os01t0103900-01.exon12 transcript:Os01t0103900-01 N/A 12 N/A +1 irgsp CDS 202042 202110 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 202252 202359 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 203007 203127 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 203302 203429 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 203511 203658 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 203760 203938 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 204203 204440 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 204543 204635 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 204730 204875 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 205042 205149 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 205290 205378 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp CDS 205534 205543 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0103900-01 N/A N/A transcript:Os01t0103900-01 Os01t0103900-01 N/A N/A +1 irgsp five_prime_UTR 201944 202041 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-49 N/A N/A transcript:Os01t0103900-01 N/A N/A N/A +1 irgsp three_prime_UTR 205544 206202 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-46 N/A N/A transcript:Os01t0103900-01 N/A N/A N/A +1 irgsp gene 206131 209606 . -1 . N/A protein_coding N/A C-type lectin domain containing protein. (Os01t0104000-01);Similar to predicted protein. (Os01t0104000-02) N/A N/A N/A Os01g0104000 gene:Os01g0104000 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 206131 209581 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104000-02 N/A N/A gene:Os01g0104000 N/A N/A Os01t0104000-02 +1 irgsp exon 206131 207029 . -1 . N/A N/A 0 N/A -1 2 Os01t0104000-02.exon4 N/A Os01t0104000-02.exon4 N/A Os01t0104000-02.exon4 transcript:Os01t0104000-02 N/A 4 N/A +1 irgsp exon 207706 208273 . -1 . N/A N/A 0 N/A 2 1 Os01t0104000-02.exon3 N/A Os01t0104000-02.exon3 N/A Os01t0104000-02.exon3 transcript:Os01t0104000-02 N/A 3 N/A +1 irgsp exon 208408 208836 . -1 . N/A N/A 1 N/A 1 1 Os01t0104000-01.exon2 N/A Os01t0104000-01.exon2 N/A Os01t0104000-01.exon2 transcript:Os01t0104000-02 N/A 2 N/A +1 irgsp exon 209438 209581 . -1 . N/A N/A 0 N/A 1 -1 Os01t0104000-02.exon1 N/A Os01t0104000-02.exon1 N/A Os01t0104000-02.exon1 transcript:Os01t0104000-02 N/A 1 N/A +1 irgsp CDS 206450 207029 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104000-02 N/A N/A transcript:Os01t0104000-02 Os01t0104000-02 N/A N/A +1 irgsp CDS 207706 208273 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104000-02 N/A N/A transcript:Os01t0104000-02 Os01t0104000-02 N/A N/A +1 irgsp CDS 208408 208836 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104000-02 N/A N/A transcript:Os01t0104000-02 Os01t0104000-02 N/A N/A +1 irgsp CDS 209438 209525 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104000-02 N/A N/A transcript:Os01t0104000-02 Os01t0104000-02 N/A N/A +1 irgsp five_prime_UTR 209526 209581 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-50 N/A N/A transcript:Os01t0104000-02 N/A N/A N/A +1 irgsp three_prime_UTR 206131 206449 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-47 N/A N/A transcript:Os01t0104000-02 N/A N/A N/A +1 irgsp mRNA 206134 209606 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104000-01 N/A N/A gene:Os01g0104000 N/A N/A Os01t0104000-01 +1 irgsp exon 206134 207029 . -1 . N/A N/A 0 N/A -1 2 Os01t0104000-01.exon4 N/A Os01t0104000-01.exon4 N/A Os01t0104000-01.exon4 transcript:Os01t0104000-01 N/A 4 N/A +1 irgsp exon 207706 208276 . -1 . N/A N/A 0 N/A 2 1 Os01t0104000-01.exon3 N/A Os01t0104000-01.exon3 N/A Os01t0104000-01.exon3 transcript:Os01t0104000-01 N/A 3 N/A +1 irgsp exon 208408 208836 . -1 . N/A N/A 1 N/A 1 1 Os01t0104000-01.exon2 N/A agat-exon-6 N/A Os01t0104000-01.exon2 transcript:Os01t0104000-01 N/A 2 N/A +1 irgsp exon 209438 209606 . -1 . N/A N/A 0 N/A 1 -1 Os01t0104000-01.exon1 N/A Os01t0104000-01.exon1 N/A Os01t0104000-01.exon1 transcript:Os01t0104000-01 N/A 1 N/A +1 irgsp CDS 206450 207029 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104000-01 N/A N/A transcript:Os01t0104000-01 Os01t0104000-01 N/A N/A +1 irgsp CDS 207706 208276 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104000-01 N/A N/A transcript:Os01t0104000-01 Os01t0104000-01 N/A N/A +1 irgsp CDS 208408 208836 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104000-01 N/A N/A transcript:Os01t0104000-01 Os01t0104000-01 N/A N/A +1 irgsp CDS 209438 209525 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104000-01 N/A N/A transcript:Os01t0104000-01 Os01t0104000-01 N/A N/A +1 irgsp five_prime_UTR 209526 209606 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-51 N/A N/A transcript:Os01t0104000-01 N/A N/A N/A +1 irgsp three_prime_UTR 206134 206449 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-48 N/A N/A transcript:Os01t0104000-01 N/A N/A N/A +1 irgsp gene 209771 214173 . 1 . N/A protein_coding N/A Similar to protein binding / zinc ion binding. (Os01t0104100-01);Similar to protein binding / zinc ion binding. (Os01t0104100-02) N/A N/A N/A Os01g0104100 gene:Os01g0104100 irgspv1.0-20170804-genes cold-inducible, cold-inducible zinc finger protein N/A N/A N/A N/A +1 irgsp mRNA 209771 214173 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104100-01 N/A N/A gene:Os01g0104100 N/A N/A Os01t0104100-01 +1 irgsp exon 209771 209896 . 1 . N/A N/A 0 N/A 0 0 Os01t0104100-01.exon1 N/A Os01t0104100-01.exon1 N/A Os01t0104100-01.exon1 transcript:Os01t0104100-01 N/A 1 N/A +1 irgsp exon 210244 210563 . 1 . N/A N/A 1 N/A 2 0 Os01t0104100-01.exon2 N/A Os01t0104100-01.exon2 N/A Os01t0104100-01.exon2 transcript:Os01t0104100-01 N/A 2 N/A +1 irgsp exon 210659 210890 . 1 . N/A N/A 1 N/A 0 2 Os01t0104100-01.exon3 N/A Os01t0104100-01.exon3 N/A Os01t0104100-01.exon3 transcript:Os01t0104100-01 N/A 3 N/A +1 irgsp exon 211015 211160 . 1 . N/A N/A 1 N/A 2 0 Os01t0104100-01.exon4 N/A Os01t0104100-01.exon4 N/A Os01t0104100-01.exon4 transcript:Os01t0104100-01 N/A 4 N/A +1 irgsp exon 212265 212352 . 1 . N/A N/A 1 N/A 0 2 Os01t0104100-01.exon5 N/A Os01t0104100-01.exon5 N/A Os01t0104100-01.exon5 transcript:Os01t0104100-01 N/A 5 N/A +1 irgsp exon 212433 212579 . 1 . N/A N/A 1 N/A 0 0 Os01t0104100-01.exon6 N/A Os01t0104100-01.exon6 N/A Os01t0104100-01.exon6 transcript:Os01t0104100-01 N/A 6 N/A +1 irgsp exon 213490 213639 . 1 . N/A N/A 1 N/A 0 0 Os01t0104100-01.exon7 N/A Os01t0104100-01.exon7 N/A Os01t0104100-01.exon7 transcript:Os01t0104100-01 N/A 7 N/A +1 irgsp exon 213741 214173 . 1 . N/A N/A 0 N/A -1 0 Os01t0104100-01.exon8 N/A Os01t0104100-01.exon8 N/A Os01t0104100-01.exon8 transcript:Os01t0104100-01 N/A 8 N/A +1 irgsp CDS 209771 209896 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-01 N/A N/A transcript:Os01t0104100-01 Os01t0104100-01 N/A N/A +1 irgsp CDS 210244 210563 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-01 N/A N/A transcript:Os01t0104100-01 Os01t0104100-01 N/A N/A +1 irgsp CDS 210659 210890 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-01 N/A N/A transcript:Os01t0104100-01 Os01t0104100-01 N/A N/A +1 irgsp CDS 211015 211160 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-01 N/A N/A transcript:Os01t0104100-01 Os01t0104100-01 N/A N/A +1 irgsp CDS 212265 212352 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-01 N/A N/A transcript:Os01t0104100-01 Os01t0104100-01 N/A N/A +1 irgsp CDS 212433 212579 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-01 N/A N/A transcript:Os01t0104100-01 Os01t0104100-01 N/A N/A +1 irgsp CDS 213490 213639 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-01 N/A N/A transcript:Os01t0104100-01 Os01t0104100-01 N/A N/A +1 irgsp CDS 213741 213788 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-01 N/A N/A transcript:Os01t0104100-01 Os01t0104100-01 N/A N/A +1 irgsp three_prime_UTR 213789 214173 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-49 N/A N/A transcript:Os01t0104100-01 N/A N/A N/A +1 irgsp mRNA 209794 214147 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104100-02 N/A N/A gene:Os01g0104100 N/A N/A Os01t0104100-02 +1 irgsp exon 209794 209896 . 1 . N/A N/A 0 N/A 0 -1 Os01t0104100-02.exon1 N/A Os01t0104100-02.exon1 N/A Os01t0104100-02.exon1 transcript:Os01t0104100-02 N/A 1 N/A +1 irgsp exon 210244 210563 . 1 . N/A N/A 1 N/A 2 0 Os01t0104100-01.exon2 N/A agat-exon-7 N/A Os01t0104100-01.exon2 transcript:Os01t0104100-02 N/A 2 N/A +1 irgsp exon 210659 210890 . 1 . N/A N/A 1 N/A 0 2 Os01t0104100-01.exon3 N/A agat-exon-8 N/A Os01t0104100-01.exon3 transcript:Os01t0104100-02 N/A 3 N/A +1 irgsp exon 211015 211160 . 1 . N/A N/A 1 N/A 2 0 Os01t0104100-01.exon4 N/A agat-exon-9 N/A Os01t0104100-01.exon4 transcript:Os01t0104100-02 N/A 4 N/A +1 irgsp exon 212265 212352 . 1 . N/A N/A 1 N/A 0 2 Os01t0104100-01.exon5 N/A agat-exon-10 N/A Os01t0104100-01.exon5 transcript:Os01t0104100-02 N/A 5 N/A +1 irgsp exon 212433 212579 . 1 . N/A N/A 1 N/A 0 0 Os01t0104100-01.exon6 N/A agat-exon-11 N/A Os01t0104100-01.exon6 transcript:Os01t0104100-02 N/A 6 N/A +1 irgsp exon 213490 213639 . 1 . N/A N/A 1 N/A 0 0 Os01t0104100-01.exon7 N/A agat-exon-12 N/A Os01t0104100-01.exon7 transcript:Os01t0104100-02 N/A 7 N/A +1 irgsp exon 213741 214147 . 1 . N/A N/A 0 N/A -1 0 Os01t0104100-02.exon8 N/A Os01t0104100-02.exon8 N/A Os01t0104100-02.exon8 transcript:Os01t0104100-02 N/A 8 N/A +1 irgsp CDS 209795 209896 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-02 N/A N/A transcript:Os01t0104100-02 Os01t0104100-02 N/A N/A +1 irgsp CDS 210244 210563 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-02 N/A N/A transcript:Os01t0104100-02 Os01t0104100-02 N/A N/A +1 irgsp CDS 210659 210890 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-02 N/A N/A transcript:Os01t0104100-02 Os01t0104100-02 N/A N/A +1 irgsp CDS 211015 211160 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-02 N/A N/A transcript:Os01t0104100-02 Os01t0104100-02 N/A N/A +1 irgsp CDS 212265 212352 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-02 N/A N/A transcript:Os01t0104100-02 Os01t0104100-02 N/A N/A +1 irgsp CDS 212433 212579 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-02 N/A N/A transcript:Os01t0104100-02 Os01t0104100-02 N/A N/A +1 irgsp CDS 213490 213639 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-02 N/A N/A transcript:Os01t0104100-02 Os01t0104100-02 N/A N/A +1 irgsp CDS 213741 213788 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104100-02 N/A N/A transcript:Os01t0104100-02 Os01t0104100-02 N/A N/A +1 irgsp five_prime_UTR 209794 209794 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-52 N/A N/A transcript:Os01t0104100-02 N/A N/A N/A +1 irgsp three_prime_UTR 213789 214147 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-50 N/A N/A transcript:Os01t0104100-02 N/A N/A N/A +1 irgsp gene 216212 217345 . 1 . N/A protein_coding N/A No apical meristem (NAM) protein domain containing protein. (Os01t0104200-00) N/A N/A N/A Os01g0104200 gene:Os01g0104200 irgspv1.0-20170804-genes NAC DOMAIN-CONTAINING PROTEIN 16 N/A N/A N/A N/A +1 irgsp mRNA 216212 217345 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104200-00 N/A N/A gene:Os01g0104200 N/A N/A Os01t0104200-00 +1 irgsp exon 216212 216769 . 1 . N/A N/A 1 N/A 0 0 Os01t0104200-00.exon1 N/A Os01t0104200-00.exon1 N/A Os01t0104200-00.exon1 transcript:Os01t0104200-00 N/A 1 N/A +1 irgsp exon 216884 217345 . 1 . N/A N/A 1 N/A 0 0 Os01t0104200-00.exon2 N/A Os01t0104200-00.exon2 N/A Os01t0104200-00.exon2 transcript:Os01t0104200-00 N/A 2 N/A +1 irgsp CDS 216212 216769 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104200-00 N/A N/A transcript:Os01t0104200-00 Os01t0104200-00 N/A N/A +1 irgsp CDS 216884 217345 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104200-00 N/A N/A transcript:Os01t0104200-00 Os01t0104200-00 N/A N/A +1 irgsp gene 226897 229301 . 1 . N/A protein_coding N/A Ricin B-related lectin domain containing protein. (Os01t0104400-01);Ricin B-related lectin domain containing protein. (Os01t0104400-02);Ricin B-related lectin domain containing protein. (Os01t0104400-03) N/A N/A N/A Os01g0104400 gene:Os01g0104400 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 226897 229229 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104400-01 N/A N/A gene:Os01g0104400 N/A N/A Os01t0104400-01 +1 irgsp exon 226897 227634 . 1 . N/A N/A 0 N/A 0 -1 Os01t0104400-01.exon1 N/A Os01t0104400-01.exon1 N/A Os01t0104400-01.exon1 transcript:Os01t0104400-01 N/A 1 N/A +1 irgsp exon 227742 227864 . 1 . N/A N/A 1 N/A 0 0 Os01t0104400-03.exon2 N/A Os01t0104400-03.exon2 N/A Os01t0104400-03.exon2 transcript:Os01t0104400-01 N/A 2 N/A +1 irgsp exon 228557 228785 . 1 . N/A N/A 1 N/A 1 0 Os01t0104400-03.exon3 N/A Os01t0104400-03.exon3 N/A Os01t0104400-03.exon3 transcript:Os01t0104400-01 N/A 3 N/A +1 irgsp exon 228930 229229 . 1 . N/A N/A 0 N/A -1 1 Os01t0104400-01.exon4 N/A Os01t0104400-01.exon4 N/A Os01t0104400-01.exon4 transcript:Os01t0104400-01 N/A 4 N/A +1 irgsp CDS 227182 227634 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-01 N/A N/A transcript:Os01t0104400-01 Os01t0104400-01 N/A N/A +1 irgsp CDS 227742 227864 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-01 N/A N/A transcript:Os01t0104400-01 Os01t0104400-01 N/A N/A +1 irgsp CDS 228557 228785 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-01 N/A N/A transcript:Os01t0104400-01 Os01t0104400-01 N/A N/A +1 irgsp CDS 228930 228931 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-01 N/A N/A transcript:Os01t0104400-01 Os01t0104400-01 N/A N/A +1 irgsp five_prime_UTR 226897 227181 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-53 N/A N/A transcript:Os01t0104400-01 N/A N/A N/A +1 irgsp three_prime_UTR 228932 229229 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-51 N/A N/A transcript:Os01t0104400-01 N/A N/A N/A +1 irgsp mRNA 227139 229301 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104400-02 N/A N/A gene:Os01g0104400 N/A N/A Os01t0104400-02 +1 irgsp exon 227139 227634 . 1 . N/A N/A 0 N/A 0 -1 Os01t0104400-02.exon1 N/A Os01t0104400-02.exon1 N/A Os01t0104400-02.exon1 transcript:Os01t0104400-02 N/A 1 N/A +1 irgsp exon 227742 227864 . 1 . N/A N/A 1 N/A 0 0 Os01t0104400-03.exon2 N/A agat-exon-13 N/A Os01t0104400-03.exon2 transcript:Os01t0104400-02 N/A 2 N/A +1 irgsp exon 228557 228785 . 1 . N/A N/A 1 N/A 1 0 Os01t0104400-03.exon3 N/A agat-exon-14 N/A Os01t0104400-03.exon3 transcript:Os01t0104400-02 N/A 3 N/A +1 irgsp exon 228930 229301 . 1 . N/A N/A 0 N/A -1 1 Os01t0104400-02.exon4 N/A Os01t0104400-02.exon4 N/A Os01t0104400-02.exon4 transcript:Os01t0104400-02 N/A 4 N/A +1 irgsp CDS 227182 227634 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-02 N/A N/A transcript:Os01t0104400-02 Os01t0104400-02 N/A N/A +1 irgsp CDS 227742 227864 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-02 N/A N/A transcript:Os01t0104400-02 Os01t0104400-02 N/A N/A +1 irgsp CDS 228557 228785 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-02 N/A N/A transcript:Os01t0104400-02 Os01t0104400-02 N/A N/A +1 irgsp CDS 228930 228931 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-02 N/A N/A transcript:Os01t0104400-02 Os01t0104400-02 N/A N/A +1 irgsp five_prime_UTR 227139 227181 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-54 N/A N/A transcript:Os01t0104400-02 N/A N/A N/A +1 irgsp three_prime_UTR 228932 229301 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-52 N/A N/A transcript:Os01t0104400-02 N/A N/A N/A +1 irgsp mRNA 227179 229214 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104400-03 N/A N/A gene:Os01g0104400 N/A N/A Os01t0104400-03 +1 irgsp exon 227179 227634 . 1 . N/A N/A 0 N/A 0 -1 Os01t0104400-03.exon1 N/A Os01t0104400-03.exon1 N/A Os01t0104400-03.exon1 transcript:Os01t0104400-03 N/A 1 N/A +1 irgsp exon 227742 227864 . 1 . N/A N/A 1 N/A 0 0 Os01t0104400-03.exon2 N/A agat-exon-15 N/A Os01t0104400-03.exon2 transcript:Os01t0104400-03 N/A 2 N/A +1 irgsp exon 228557 228785 . 1 . N/A N/A 1 N/A 1 0 Os01t0104400-03.exon3 N/A agat-exon-16 N/A Os01t0104400-03.exon3 transcript:Os01t0104400-03 N/A 3 N/A +1 irgsp exon 228930 229214 . 1 . N/A N/A 0 N/A -1 1 Os01t0104400-03.exon4 N/A Os01t0104400-03.exon4 N/A Os01t0104400-03.exon4 transcript:Os01t0104400-03 N/A 4 N/A +1 irgsp CDS 227182 227634 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-03 N/A N/A transcript:Os01t0104400-03 Os01t0104400-03 N/A N/A +1 irgsp CDS 227742 227864 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-03 N/A N/A transcript:Os01t0104400-03 Os01t0104400-03 N/A N/A +1 irgsp CDS 228557 228785 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-03 N/A N/A transcript:Os01t0104400-03 Os01t0104400-03 N/A N/A +1 irgsp CDS 228930 228931 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104400-03 N/A N/A transcript:Os01t0104400-03 Os01t0104400-03 N/A N/A +1 irgsp five_prime_UTR 227179 227181 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-55 N/A N/A transcript:Os01t0104400-03 N/A N/A N/A +1 irgsp three_prime_UTR 228932 229214 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-53 N/A N/A transcript:Os01t0104400-03 N/A N/A N/A +1 irgsp gene 241680 243440 . 1 . N/A protein_coding N/A No apical meristem (NAM) protein domain containing protein. (Os01t0104500-01) N/A N/A N/A Os01g0104500 gene:Os01g0104500 irgspv1.0-20170804-genes NAC DOMAIN-CONTAINING PROTEIN 20 N/A N/A N/A N/A +1 irgsp mRNA 241680 243440 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104500-01 N/A N/A gene:Os01g0104500 N/A N/A Os01t0104500-01 +1 irgsp exon 241680 241702 . 1 . N/A N/A 1 N/A -1 -1 Os01t0104500-01.exon1 N/A Os01t0104500-01.exon1 N/A Os01t0104500-01.exon1 transcript:Os01t0104500-01 N/A 1 N/A +1 irgsp exon 241866 242091 . 1 . N/A N/A 1 N/A 1 -1 Os01t0104500-01.exon2 N/A Os01t0104500-01.exon2 N/A Os01t0104500-01.exon2 transcript:Os01t0104500-01 N/A 2 N/A +1 irgsp exon 242199 243440 . 1 . N/A N/A 1 N/A -1 1 Os01t0104500-01.exon3 N/A Os01t0104500-01.exon3 N/A Os01t0104500-01.exon3 transcript:Os01t0104500-01 N/A 3 N/A +1 irgsp CDS 241908 242091 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104500-01 N/A N/A transcript:Os01t0104500-01 Os01t0104500-01 N/A N/A +1 irgsp CDS 242199 242977 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104500-01 N/A N/A transcript:Os01t0104500-01 Os01t0104500-01 N/A N/A +1 irgsp five_prime_UTR 241680 241702 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-56 N/A N/A transcript:Os01t0104500-01 N/A N/A N/A +1 irgsp five_prime_UTR 241866 241907 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-57 N/A N/A transcript:Os01t0104500-01 N/A N/A N/A +1 irgsp three_prime_UTR 242978 243440 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-54 N/A N/A transcript:Os01t0104500-01 N/A N/A N/A +1 irgsp gene 248828 256872 . -1 . N/A protein_coding N/A Homolog of Arabidopsis DE-ETIOLATED1 (DET1), Modulation of the ABA signaling pathway and ABA biosynthesis, Regulation of chlorophyll content (Os01t0104600-01);Similar to Light-mediated development protein DET1 (Deetiolated1 homolog) (tDET1) (High pigmentation protein 2) (Protein dark green). (Os01t0104600-02) N/A N/A N/A Os01g0104600 gene:Os01g0104600 irgspv1.0-20170804-genes DE-ETIOLATED1 N/A N/A N/A N/A +1 irgsp mRNA 248828 256571 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104600-02 N/A N/A gene:Os01g0104600 N/A N/A Os01t0104600-02 +1 irgsp exon 248828 249107 . -1 . N/A N/A 1 N/A -1 1 Os01t0104600-01.exon11 N/A Os01t0104600-01.exon11 N/A Os01t0104600-01.exon11 transcript:Os01t0104600-02 N/A 11 N/A +1 irgsp exon 249369 249468 . -1 . N/A N/A 1 N/A 1 0 Os01t0104600-01.exon10 N/A Os01t0104600-01.exon10 N/A Os01t0104600-01.exon10 transcript:Os01t0104600-02 N/A 10 N/A +1 irgsp exon 249861 249956 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon9 N/A Os01t0104600-01.exon9 N/A Os01t0104600-01.exon9 transcript:Os01t0104600-02 N/A 9 N/A +1 irgsp exon 250617 250781 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon8 N/A Os01t0104600-01.exon8 N/A Os01t0104600-01.exon8 transcript:Os01t0104600-02 N/A 8 N/A +1 irgsp exon 250860 250940 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon7 N/A Os01t0104600-01.exon7 N/A Os01t0104600-01.exon7 transcript:Os01t0104600-02 N/A 7 N/A +1 irgsp exon 251026 251082 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon6 N/A Os01t0104600-01.exon6 N/A Os01t0104600-01.exon6 transcript:Os01t0104600-02 N/A 6 N/A +1 irgsp exon 251316 251384 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon5 N/A Os01t0104600-01.exon5 N/A Os01t0104600-01.exon5 transcript:Os01t0104600-02 N/A 5 N/A +1 irgsp exon 251695 251790 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon4 N/A Os01t0104600-01.exon4 N/A Os01t0104600-01.exon4 transcript:Os01t0104600-02 N/A 4 N/A +1 irgsp exon 255325 255553 . -1 . N/A N/A 1 N/A 0 2 Os01t0104600-01.exon3 N/A Os01t0104600-01.exon3 N/A Os01t0104600-01.exon3 transcript:Os01t0104600-02 N/A 3 N/A +1 irgsp exon 255674 256098 . -1 . N/A N/A 1 N/A 2 0 Os01t0104600-01.exon2 N/A Os01t0104600-01.exon2 N/A Os01t0104600-01.exon2 transcript:Os01t0104600-02 N/A 2 N/A +1 irgsp exon 256361 256571 . -1 . N/A N/A 0 N/A 0 -1 Os01t0104600-02.exon1 N/A Os01t0104600-02.exon1 N/A Os01t0104600-02.exon1 transcript:Os01t0104600-02 N/A 1 N/A +1 irgsp CDS 248971 249107 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 249369 249468 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 249861 249956 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 250617 250781 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 250860 250940 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 251026 251082 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 251316 251384 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 251695 251790 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 255325 255553 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 255674 256098 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp CDS 256361 256441 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-02 N/A N/A transcript:Os01t0104600-02 Os01t0104600-02 N/A N/A +1 irgsp five_prime_UTR 256442 256571 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-58 N/A N/A transcript:Os01t0104600-02 N/A N/A N/A +1 irgsp three_prime_UTR 248828 248970 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-55 N/A N/A transcript:Os01t0104600-02 N/A N/A N/A +1 irgsp mRNA 248828 256872 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104600-01 N/A N/A gene:Os01g0104600 N/A N/A Os01t0104600-01 +1 irgsp exon 248828 249107 . -1 . N/A N/A 1 N/A -1 1 Os01t0104600-01.exon11 N/A agat-exon-17 N/A Os01t0104600-01.exon11 transcript:Os01t0104600-01 N/A 11 N/A +1 irgsp exon 249369 249468 . -1 . N/A N/A 1 N/A 1 0 Os01t0104600-01.exon10 N/A agat-exon-18 N/A Os01t0104600-01.exon10 transcript:Os01t0104600-01 N/A 10 N/A +1 irgsp exon 249861 249956 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon9 N/A agat-exon-19 N/A Os01t0104600-01.exon9 transcript:Os01t0104600-01 N/A 9 N/A +1 irgsp exon 250617 250781 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon8 N/A agat-exon-20 N/A Os01t0104600-01.exon8 transcript:Os01t0104600-01 N/A 8 N/A +1 irgsp exon 250860 250940 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon7 N/A agat-exon-21 N/A Os01t0104600-01.exon7 transcript:Os01t0104600-01 N/A 7 N/A +1 irgsp exon 251026 251082 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon6 N/A agat-exon-22 N/A Os01t0104600-01.exon6 transcript:Os01t0104600-01 N/A 6 N/A +1 irgsp exon 251316 251384 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon5 N/A agat-exon-23 N/A Os01t0104600-01.exon5 transcript:Os01t0104600-01 N/A 5 N/A +1 irgsp exon 251695 251790 . -1 . N/A N/A 1 N/A 0 0 Os01t0104600-01.exon4 N/A agat-exon-24 N/A Os01t0104600-01.exon4 transcript:Os01t0104600-01 N/A 4 N/A +1 irgsp exon 255325 255553 . -1 . N/A N/A 1 N/A 0 2 Os01t0104600-01.exon3 N/A agat-exon-25 N/A Os01t0104600-01.exon3 transcript:Os01t0104600-01 N/A 3 N/A +1 irgsp exon 255674 256098 . -1 . N/A N/A 1 N/A 2 0 Os01t0104600-01.exon2 N/A agat-exon-26 N/A Os01t0104600-01.exon2 transcript:Os01t0104600-01 N/A 2 N/A +1 irgsp exon 256361 256872 . -1 . N/A N/A 0 N/A 0 -1 Os01t0104600-01.exon1 N/A Os01t0104600-01.exon1 N/A Os01t0104600-01.exon1 transcript:Os01t0104600-01 N/A 1 N/A +1 irgsp CDS 248971 249107 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 249369 249468 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 249861 249956 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 250617 250781 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 250860 250940 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 251026 251082 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 251316 251384 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 251695 251790 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 255325 255553 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 255674 256098 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp CDS 256361 256441 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104600-01 N/A N/A transcript:Os01t0104600-01 Os01t0104600-01 N/A N/A +1 irgsp five_prime_UTR 256442 256872 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-59 N/A N/A transcript:Os01t0104600-01 N/A N/A N/A +1 irgsp three_prime_UTR 248828 248970 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-56 N/A N/A transcript:Os01t0104600-01 N/A N/A N/A +1 irgsp gene 261530 268145 . 1 . N/A protein_coding N/A Sas10/Utp3 family protein. (Os01t0104800-01);Hypothetical conserved gene. (Os01t0104800-02) N/A N/A N/A Os01g0104800 gene:Os01g0104800 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 261530 268145 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104800-01 N/A N/A gene:Os01g0104800 N/A N/A Os01t0104800-01 +1 irgsp exon 261530 261661 . 1 . N/A N/A 0 N/A 1 -1 Os01t0104800-01.exon1 N/A Os01t0104800-01.exon1 N/A Os01t0104800-01.exon1 transcript:Os01t0104800-01 N/A 1 N/A +1 irgsp exon 261767 261805 . 1 . N/A N/A 0 N/A 1 1 Os01t0104800-01.exon2 N/A Os01t0104800-01.exon2 N/A Os01t0104800-01.exon2 transcript:Os01t0104800-01 N/A 2 N/A +1 irgsp exon 261895 261941 . 1 . N/A N/A 0 N/A 0 1 Os01t0104800-01.exon3 N/A Os01t0104800-01.exon3 N/A Os01t0104800-01.exon3 transcript:Os01t0104800-01 N/A 3 N/A +1 irgsp exon 262582 262681 . 1 . N/A N/A 0 N/A 1 0 Os01t0104800-01.exon4 N/A Os01t0104800-01.exon4 N/A Os01t0104800-01.exon4 transcript:Os01t0104800-01 N/A 4 N/A +1 irgsp exon 262925 263181 . 1 . N/A N/A 0 N/A 0 1 Os01t0104800-01.exon5 N/A Os01t0104800-01.exon5 N/A Os01t0104800-01.exon5 transcript:Os01t0104800-01 N/A 5 N/A +1 irgsp exon 263525 263640 . 1 . N/A N/A 0 N/A 2 0 Os01t0104800-01.exon6 N/A Os01t0104800-01.exon6 N/A Os01t0104800-01.exon6 transcript:Os01t0104800-01 N/A 6 N/A +1 irgsp exon 264014 264098 . 1 . N/A N/A 1 N/A 0 2 Os01t0104800-01.exon7 N/A Os01t0104800-01.exon7 N/A Os01t0104800-01.exon7 transcript:Os01t0104800-01 N/A 7 N/A +1 irgsp exon 265236 265415 . 1 . N/A N/A 1 N/A 0 0 Os01t0104800-01.exon8 N/A Os01t0104800-01.exon8 N/A Os01t0104800-01.exon8 transcript:Os01t0104800-01 N/A 8 N/A +1 irgsp exon 265506 265649 . 1 . N/A N/A 1 N/A 0 0 Os01t0104800-01.exon9 N/A Os01t0104800-01.exon9 N/A Os01t0104800-01.exon9 transcript:Os01t0104800-01 N/A 9 N/A +1 irgsp exon 265740 265817 . 1 . N/A N/A 1 N/A 0 0 Os01t0104800-01.exon10 N/A Os01t0104800-01.exon10 N/A Os01t0104800-01.exon10 transcript:Os01t0104800-01 N/A 10 N/A +1 irgsp exon 265909 266045 . 1 . N/A N/A 1 N/A 2 0 Os01t0104800-01.exon11 N/A Os01t0104800-01.exon11 N/A Os01t0104800-01.exon11 transcript:Os01t0104800-01 N/A 11 N/A +1 irgsp exon 266138 266246 . 1 . N/A N/A 1 N/A 0 2 Os01t0104800-01.exon12 N/A Os01t0104800-01.exon12 N/A Os01t0104800-01.exon12 transcript:Os01t0104800-01 N/A 12 N/A +1 irgsp exon 267237 267514 . 1 . N/A N/A 1 N/A 2 0 Os01t0104800-01.exon13 N/A Os01t0104800-01.exon13 N/A Os01t0104800-01.exon13 transcript:Os01t0104800-01 N/A 13 N/A +1 irgsp exon 267591 267657 . 1 . N/A N/A 1 N/A 0 2 Os01t0104800-01.exon14 N/A Os01t0104800-01.exon14 N/A Os01t0104800-01.exon14 transcript:Os01t0104800-01 N/A 14 N/A +1 irgsp exon 267734 267802 . 1 . N/A N/A 1 N/A 0 0 Os01t0104800-01.exon15 N/A Os01t0104800-01.exon15 N/A Os01t0104800-01.exon15 transcript:Os01t0104800-01 N/A 15 N/A +1 irgsp exon 267880 268145 . 1 . N/A N/A 0 N/A -1 0 Os01t0104800-01.exon16 N/A Os01t0104800-01.exon16 N/A Os01t0104800-01.exon16 transcript:Os01t0104800-01 N/A 16 N/A +1 irgsp CDS 261562 261661 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 261767 261805 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 261895 261941 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 262582 262681 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 262925 263181 . 1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 263525 263640 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 264014 264098 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 265236 265415 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 265506 265649 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 265740 265817 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 265909 266045 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 266138 266246 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 267237 267514 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 267591 267657 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 267734 267802 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp CDS 267880 268011 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-01 N/A N/A transcript:Os01t0104800-01 Os01t0104800-01 N/A N/A +1 irgsp five_prime_UTR 261530 261561 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-60 N/A N/A transcript:Os01t0104800-01 N/A N/A N/A +1 irgsp three_prime_UTR 268012 268145 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-57 N/A N/A transcript:Os01t0104800-01 N/A N/A N/A +1 irgsp mRNA 263523 268120 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104800-02 N/A N/A gene:Os01g0104800 N/A N/A Os01t0104800-02 +1 irgsp exon 263523 263640 . 1 . N/A N/A 0 N/A 2 -1 Os01t0104800-02.exon1 N/A Os01t0104800-02.exon1 N/A Os01t0104800-02.exon1 transcript:Os01t0104800-02 N/A 1 N/A +1 irgsp exon 264014 264098 . 1 . N/A N/A 1 N/A 0 2 Os01t0104800-01.exon7 N/A agat-exon-27 N/A Os01t0104800-01.exon7 transcript:Os01t0104800-02 N/A 2 N/A +1 irgsp exon 265236 265415 . 1 . N/A N/A 1 N/A 0 0 Os01t0104800-01.exon8 N/A agat-exon-28 N/A Os01t0104800-01.exon8 transcript:Os01t0104800-02 N/A 3 N/A +1 irgsp exon 265506 265649 . 1 . N/A N/A 1 N/A 0 0 Os01t0104800-01.exon9 N/A agat-exon-29 N/A Os01t0104800-01.exon9 transcript:Os01t0104800-02 N/A 4 N/A +1 irgsp exon 265740 265817 . 1 . N/A N/A 1 N/A 0 0 Os01t0104800-01.exon10 N/A agat-exon-30 N/A Os01t0104800-01.exon10 transcript:Os01t0104800-02 N/A 5 N/A +1 irgsp exon 265909 266045 . 1 . N/A N/A 1 N/A 2 0 Os01t0104800-01.exon11 N/A agat-exon-31 N/A Os01t0104800-01.exon11 transcript:Os01t0104800-02 N/A 6 N/A +1 irgsp exon 266138 266246 . 1 . N/A N/A 1 N/A 0 2 Os01t0104800-01.exon12 N/A agat-exon-32 N/A Os01t0104800-01.exon12 transcript:Os01t0104800-02 N/A 7 N/A +1 irgsp exon 267237 267514 . 1 . N/A N/A 1 N/A 2 0 Os01t0104800-01.exon13 N/A agat-exon-33 N/A Os01t0104800-01.exon13 transcript:Os01t0104800-02 N/A 8 N/A +1 irgsp exon 267591 267657 . 1 . N/A N/A 1 N/A 0 2 Os01t0104800-01.exon14 N/A agat-exon-34 N/A Os01t0104800-01.exon14 transcript:Os01t0104800-02 N/A 9 N/A +1 irgsp exon 267734 267802 . 1 . N/A N/A 1 N/A 0 0 Os01t0104800-01.exon15 N/A agat-exon-35 N/A Os01t0104800-01.exon15 transcript:Os01t0104800-02 N/A 10 N/A +1 irgsp exon 267880 268120 . 1 . N/A N/A 0 N/A -1 0 Os01t0104800-02.exon11 N/A Os01t0104800-02.exon11 N/A Os01t0104800-02.exon11 transcript:Os01t0104800-02 N/A 11 N/A +1 irgsp CDS 263525 263640 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 264014 264098 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 265236 265415 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 265506 265649 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 265740 265817 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 265909 266045 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 266138 266246 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 267237 267514 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 267591 267657 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 267734 267802 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp CDS 267880 268011 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104800-02 N/A N/A transcript:Os01t0104800-02 Os01t0104800-02 N/A N/A +1 irgsp five_prime_UTR 263523 263524 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-61 N/A N/A transcript:Os01t0104800-02 N/A N/A N/A +1 irgsp three_prime_UTR 268012 268120 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-58 N/A N/A transcript:Os01t0104800-02 N/A N/A N/A +1 irgsp gene 270179 275084 . -1 . N/A protein_coding N/A Transferase family protein. (Os01t0104900-01);Hypothetical conserved gene. (Os01t0104900-02) N/A N/A N/A Os01g0104900 gene:Os01g0104900 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 270179 275084 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104900-01 N/A N/A gene:Os01g0104900 N/A N/A Os01t0104900-01 +1 irgsp exon 270179 271333 . -1 . N/A N/A 0 N/A -1 0 Os01t0104900-01.exon2 N/A Os01t0104900-01.exon2 N/A Os01t0104900-01.exon2 transcript:Os01t0104900-01 N/A 2 N/A +1 irgsp exon 274529 275084 . -1 . N/A N/A 0 N/A 0 -1 Os01t0104900-01.exon1 N/A Os01t0104900-01.exon1 N/A Os01t0104900-01.exon1 transcript:Os01t0104900-01 N/A 1 N/A +1 irgsp CDS 270356 271333 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104900-01 N/A N/A transcript:Os01t0104900-01 Os01t0104900-01 N/A N/A +1 irgsp CDS 274529 274957 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104900-01 N/A N/A transcript:Os01t0104900-01 Os01t0104900-01 N/A N/A +1 irgsp five_prime_UTR 274958 275084 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-62 N/A N/A transcript:Os01t0104900-01 N/A N/A N/A +1 irgsp three_prime_UTR 270179 270355 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-59 N/A N/A transcript:Os01t0104900-01 N/A N/A N/A +1 irgsp mRNA 270250 271518 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0104900-02 N/A N/A gene:Os01g0104900 N/A N/A Os01t0104900-02 +1 irgsp exon 270250 271333 . -1 . N/A N/A 0 N/A -1 -1 Os01t0104900-02.exon2 N/A Os01t0104900-02.exon2 N/A Os01t0104900-02.exon2 transcript:Os01t0104900-02 N/A 2 N/A +1 irgsp exon 271457 271518 . -1 . N/A N/A 0 N/A -1 -1 Os01t0104900-02.exon1 N/A Os01t0104900-02.exon1 N/A Os01t0104900-02.exon1 transcript:Os01t0104900-02 N/A 1 N/A +1 irgsp CDS 270356 271309 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0104900-02 N/A N/A transcript:Os01t0104900-02 Os01t0104900-02 N/A N/A +1 irgsp five_prime_UTR 271310 271333 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-63 N/A N/A transcript:Os01t0104900-02 N/A N/A N/A +1 irgsp five_prime_UTR 271457 271518 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-64 N/A N/A transcript:Os01t0104900-02 N/A N/A N/A +1 irgsp three_prime_UTR 270250 270355 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-60 N/A N/A transcript:Os01t0104900-02 N/A N/A N/A +1 irgsp gene 284762 291892 . -1 . N/A protein_coding N/A Similar to HAT family dimerisation domain containing protein, expressed. (Os01t0105300-01) N/A N/A N/A Os01g0105300 gene:Os01g0105300 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 284762 291892 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0105300-01 N/A N/A gene:Os01g0105300 N/A N/A Os01t0105300-01 +1 irgsp exon 284762 287047 . -1 . N/A N/A 1 N/A -1 -1 Os01t0105300-01.exon5 N/A Os01t0105300-01.exon5 N/A Os01t0105300-01.exon5 transcript:Os01t0105300-01 N/A 5 N/A +1 irgsp exon 291398 291436 . -1 . N/A N/A 1 N/A -1 -1 Os01t0105300-01.exon4 N/A Os01t0105300-01.exon4 N/A Os01t0105300-01.exon4 transcript:Os01t0105300-01 N/A 4 N/A +1 irgsp exon 291520 291534 . -1 . N/A N/A 1 N/A -1 -1 Os01t0105300-01.exon3 N/A Os01t0105300-01.exon3 N/A Os01t0105300-01.exon3 transcript:Os01t0105300-01 N/A 3 N/A +1 irgsp exon 291678 291738 . -1 . N/A N/A 1 N/A -1 -1 Os01t0105300-01.exon2 N/A Os01t0105300-01.exon2 N/A Os01t0105300-01.exon2 transcript:Os01t0105300-01 N/A 2 N/A +1 irgsp exon 291838 291892 . -1 . N/A N/A 1 N/A -1 -1 Os01t0105300-01.exon1 N/A Os01t0105300-01.exon1 N/A Os01t0105300-01.exon1 transcript:Os01t0105300-01 N/A 1 N/A +1 irgsp CDS 284931 285020 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105300-01 N/A N/A transcript:Os01t0105300-01 Os01t0105300-01 N/A N/A +1 irgsp five_prime_UTR 285021 287047 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-65 N/A N/A transcript:Os01t0105300-01 N/A N/A N/A +1 irgsp five_prime_UTR 291398 291436 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-66 N/A N/A transcript:Os01t0105300-01 N/A N/A N/A +1 irgsp five_prime_UTR 291520 291534 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-67 N/A N/A transcript:Os01t0105300-01 N/A N/A N/A +1 irgsp five_prime_UTR 291678 291738 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-68 N/A N/A transcript:Os01t0105300-01 N/A N/A N/A +1 irgsp five_prime_UTR 291838 291892 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-69 N/A N/A transcript:Os01t0105300-01 N/A N/A N/A +1 irgsp three_prime_UTR 284762 284930 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-61 N/A N/A transcript:Os01t0105300-01 N/A N/A N/A +1 irgsp gene 288372 292296 . 1 . N/A protein_coding N/A Similar to Kinesin heavy chain. (Os01t0105400-01) N/A N/A N/A Os01g0105400 gene:Os01g0105400 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 288372 292296 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0105400-01 N/A N/A gene:Os01g0105400 N/A N/A Os01t0105400-01 +1 irgsp exon 288372 288846 . 1 . N/A N/A 1 N/A -1 -1 Os01t0105400-01.exon1 N/A Os01t0105400-01.exon1 N/A Os01t0105400-01.exon1 transcript:Os01t0105400-01 N/A 1 N/A +1 irgsp exon 288950 289116 . 1 . N/A N/A 1 N/A -1 -1 Os01t0105400-01.exon2 N/A Os01t0105400-01.exon2 N/A Os01t0105400-01.exon2 transcript:Os01t0105400-01 N/A 2 N/A +1 irgsp exon 289202 289572 . 1 . N/A N/A 1 N/A -1 -1 Os01t0105400-01.exon3 N/A Os01t0105400-01.exon3 N/A Os01t0105400-01.exon3 transcript:Os01t0105400-01 N/A 3 N/A +1 irgsp exon 289661 289830 . 1 . N/A N/A 1 N/A -1 -1 Os01t0105400-01.exon4 N/A Os01t0105400-01.exon4 N/A Os01t0105400-01.exon4 transcript:Os01t0105400-01 N/A 4 N/A +1 irgsp exon 290395 290512 . 1 . N/A N/A 1 N/A 2 -1 Os01t0105400-01.exon5 N/A Os01t0105400-01.exon5 N/A Os01t0105400-01.exon5 transcript:Os01t0105400-01 N/A 5 N/A +1 irgsp exon 291372 291574 . 1 . N/A N/A 1 N/A -1 2 Os01t0105400-01.exon6 N/A Os01t0105400-01.exon6 N/A Os01t0105400-01.exon6 transcript:Os01t0105400-01 N/A 6 N/A +1 irgsp exon 291648 291779 . 1 . N/A N/A 1 N/A -1 -1 Os01t0105400-01.exon7 N/A Os01t0105400-01.exon7 N/A Os01t0105400-01.exon7 transcript:Os01t0105400-01 N/A 7 N/A +1 irgsp exon 291859 291948 . 1 . N/A N/A 1 N/A -1 -1 Os01t0105400-01.exon8 N/A Os01t0105400-01.exon8 N/A Os01t0105400-01.exon8 transcript:Os01t0105400-01 N/A 8 N/A +1 irgsp exon 292073 292296 . 1 . N/A N/A 1 N/A -1 -1 Os01t0105400-01.exon9 N/A Os01t0105400-01.exon9 N/A Os01t0105400-01.exon9 transcript:Os01t0105400-01 N/A 9 N/A +1 irgsp CDS 290433 290512 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105400-01 N/A N/A transcript:Os01t0105400-01 Os01t0105400-01 N/A N/A +1 irgsp CDS 291372 291558 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105400-01 N/A N/A transcript:Os01t0105400-01 Os01t0105400-01 N/A N/A +1 irgsp five_prime_UTR 288372 288846 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-70 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp five_prime_UTR 288950 289116 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-71 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp five_prime_UTR 289202 289572 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-72 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp five_prime_UTR 289661 289830 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-73 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp five_prime_UTR 290395 290432 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-74 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp three_prime_UTR 291559 291574 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-62 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp three_prime_UTR 291648 291779 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-63 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp three_prime_UTR 291859 291948 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-64 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp three_prime_UTR 292073 292296 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-65 N/A N/A transcript:Os01t0105400-01 N/A N/A N/A +1 irgsp gene 303233 306736 . 1 . N/A protein_coding N/A Basic helix-loop-helix dimerisation region bHLH domain containing protein. (Os01t0105700-01) N/A N/A N/A Os01g0105700 gene:Os01g0105700 irgspv1.0-20170804-genes basic helix-loop-helix protein 071 N/A N/A N/A N/A +1 irgsp mRNA 303233 306736 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0105700-01 N/A N/A gene:Os01g0105700 N/A N/A Os01t0105700-01 +1 irgsp exon 303233 303471 . 1 . N/A N/A 1 N/A 2 -1 Os01t0105700-01.exon1 N/A Os01t0105700-01.exon1 N/A Os01t0105700-01.exon1 transcript:Os01t0105700-01 N/A 1 N/A +1 irgsp exon 303981 304509 . 1 . N/A N/A 1 N/A 0 2 Os01t0105700-01.exon2 N/A Os01t0105700-01.exon2 N/A Os01t0105700-01.exon2 transcript:Os01t0105700-01 N/A 2 N/A +1 irgsp exon 305572 305718 . 1 . N/A N/A 1 N/A 0 0 Os01t0105700-01.exon3 N/A Os01t0105700-01.exon3 N/A Os01t0105700-01.exon3 transcript:Os01t0105700-01 N/A 3 N/A +1 irgsp exon 305834 305899 . 1 . N/A N/A 1 N/A 0 0 Os01t0105700-01.exon4 N/A Os01t0105700-01.exon4 N/A Os01t0105700-01.exon4 transcript:Os01t0105700-01 N/A 4 N/A +1 irgsp exon 305993 306058 . 1 . N/A N/A 1 N/A 0 0 Os01t0105700-01.exon5 N/A Os01t0105700-01.exon5 N/A Os01t0105700-01.exon5 transcript:Os01t0105700-01 N/A 5 N/A +1 irgsp exon 306171 306245 . 1 . N/A N/A 1 N/A 0 0 Os01t0105700-01.exon6 N/A Os01t0105700-01.exon6 N/A Os01t0105700-01.exon6 transcript:Os01t0105700-01 N/A 6 N/A +1 irgsp exon 306353 306736 . 1 . N/A N/A 1 N/A -1 0 Os01t0105700-01.exon7 N/A Os01t0105700-01.exon7 N/A Os01t0105700-01.exon7 transcript:Os01t0105700-01 N/A 7 N/A +1 irgsp CDS 303329 303471 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105700-01 N/A N/A transcript:Os01t0105700-01 Os01t0105700-01 N/A N/A +1 irgsp CDS 303981 304509 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105700-01 N/A N/A transcript:Os01t0105700-01 Os01t0105700-01 N/A N/A +1 irgsp CDS 305572 305718 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105700-01 N/A N/A transcript:Os01t0105700-01 Os01t0105700-01 N/A N/A +1 irgsp CDS 305834 305899 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105700-01 N/A N/A transcript:Os01t0105700-01 Os01t0105700-01 N/A N/A +1 irgsp CDS 305993 306058 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105700-01 N/A N/A transcript:Os01t0105700-01 Os01t0105700-01 N/A N/A +1 irgsp CDS 306171 306245 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105700-01 N/A N/A transcript:Os01t0105700-01 Os01t0105700-01 N/A N/A +1 irgsp CDS 306353 306493 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105700-01 N/A N/A transcript:Os01t0105700-01 Os01t0105700-01 N/A N/A +1 irgsp five_prime_UTR 303233 303328 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-75 N/A N/A transcript:Os01t0105700-01 N/A N/A N/A +1 irgsp three_prime_UTR 306494 306736 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-66 N/A N/A transcript:Os01t0105700-01 N/A N/A N/A +1 irgsp gene 306871 308842 . -1 . N/A protein_coding N/A Similar to Iron sulfur assembly protein 1. (Os01t0105800-01) N/A N/A N/A Os01g0105800 gene:Os01g0105800 irgspv1.0-20170804-genes IRON-SULFUR CLUSTER PROTEIN 9 N/A N/A N/A N/A +1 irgsp mRNA 306871 308842 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0105800-01 N/A N/A gene:Os01g0105800 N/A N/A Os01t0105800-01 +1 irgsp exon 306871 307217 . -1 . N/A N/A 1 N/A -1 2 Os01t0105800-01.exon4 N/A Os01t0105800-01.exon4 N/A Os01t0105800-01.exon4 transcript:Os01t0105800-01 N/A 4 N/A +1 irgsp exon 307296 307413 . -1 . N/A N/A 1 N/A 2 1 Os01t0105800-01.exon3 N/A Os01t0105800-01.exon3 N/A Os01t0105800-01.exon3 transcript:Os01t0105800-01 N/A 3 N/A +1 irgsp exon 308397 308626 . -1 . N/A N/A 1 N/A 1 -1 Os01t0105800-01.exon2 N/A Os01t0105800-01.exon2 N/A Os01t0105800-01.exon2 transcript:Os01t0105800-01 N/A 2 N/A +1 irgsp exon 308703 308842 . -1 . N/A N/A 1 N/A -1 -1 Os01t0105800-01.exon1 N/A Os01t0105800-01.exon1 N/A Os01t0105800-01.exon1 transcript:Os01t0105800-01 N/A 1 N/A +1 irgsp CDS 307124 307217 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105800-01 N/A N/A transcript:Os01t0105800-01 Os01t0105800-01 N/A N/A +1 irgsp CDS 307296 307413 . -1 2 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105800-01 N/A N/A transcript:Os01t0105800-01 Os01t0105800-01 N/A N/A +1 irgsp CDS 308397 308601 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105800-01 N/A N/A transcript:Os01t0105800-01 Os01t0105800-01 N/A N/A +1 irgsp five_prime_UTR 308602 308626 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-76 N/A N/A transcript:Os01t0105800-01 N/A N/A N/A +1 irgsp five_prime_UTR 308703 308842 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-77 N/A N/A transcript:Os01t0105800-01 N/A N/A N/A +1 irgsp three_prime_UTR 306871 307123 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-67 N/A N/A transcript:Os01t0105800-01 N/A N/A N/A +1 irgsp gene 309520 313170 . -1 . N/A protein_coding N/A Carbohydrate/purine kinase domain containing protein. (Os01t0105900-01) N/A N/A N/A Os01g0105900 gene:Os01g0105900 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 309520 313170 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0105900-01 N/A N/A gene:Os01g0105900 N/A N/A Os01t0105900-01 +1 irgsp exon 309520 310070 . -1 . N/A N/A 1 N/A -1 0 Os01t0105900-01.exon8 N/A Os01t0105900-01.exon8 N/A Os01t0105900-01.exon8 transcript:Os01t0105900-01 N/A 8 N/A +1 irgsp exon 310256 310367 . -1 . N/A N/A 1 N/A 0 2 Os01t0105900-01.exon7 N/A Os01t0105900-01.exon7 N/A Os01t0105900-01.exon7 transcript:Os01t0105900-01 N/A 7 N/A +1 irgsp exon 310455 310552 . -1 . N/A N/A 1 N/A 2 0 Os01t0105900-01.exon6 N/A Os01t0105900-01.exon6 N/A Os01t0105900-01.exon6 transcript:Os01t0105900-01 N/A 6 N/A +1 irgsp exon 310632 310739 . -1 . N/A N/A 1 N/A 0 0 Os01t0105900-01.exon5 N/A Os01t0105900-01.exon5 N/A Os01t0105900-01.exon5 transcript:Os01t0105900-01 N/A 5 N/A +1 irgsp exon 310880 310918 . -1 . N/A N/A 1 N/A 0 0 Os01t0105900-01.exon4 N/A Os01t0105900-01.exon4 N/A Os01t0105900-01.exon4 transcript:Os01t0105900-01 N/A 4 N/A +1 irgsp exon 311002 311073 . -1 . N/A N/A 1 N/A 0 0 Os01t0105900-01.exon3 N/A Os01t0105900-01.exon3 N/A Os01t0105900-01.exon3 transcript:Os01t0105900-01 N/A 3 N/A +1 irgsp exon 311163 311426 . -1 . N/A N/A 1 N/A 0 0 Os01t0105900-01.exon2 N/A Os01t0105900-01.exon2 N/A Os01t0105900-01.exon2 transcript:Os01t0105900-01 N/A 2 N/A +1 irgsp exon 312867 313170 . -1 . N/A N/A 1 N/A 0 -1 Os01t0105900-01.exon1 N/A Os01t0105900-01.exon1 N/A Os01t0105900-01.exon1 transcript:Os01t0105900-01 N/A 1 N/A +1 irgsp CDS 309822 310070 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105900-01 N/A N/A transcript:Os01t0105900-01 Os01t0105900-01 N/A N/A +1 irgsp CDS 310256 310367 . -1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105900-01 N/A N/A transcript:Os01t0105900-01 Os01t0105900-01 N/A N/A +1 irgsp CDS 310455 310552 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105900-01 N/A N/A transcript:Os01t0105900-01 Os01t0105900-01 N/A N/A +1 irgsp CDS 310632 310739 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105900-01 N/A N/A transcript:Os01t0105900-01 Os01t0105900-01 N/A N/A +1 irgsp CDS 310880 310918 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105900-01 N/A N/A transcript:Os01t0105900-01 Os01t0105900-01 N/A N/A +1 irgsp CDS 311002 311073 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105900-01 N/A N/A transcript:Os01t0105900-01 Os01t0105900-01 N/A N/A +1 irgsp CDS 311163 311426 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105900-01 N/A N/A transcript:Os01t0105900-01 Os01t0105900-01 N/A N/A +1 irgsp CDS 312867 313064 . -1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0105900-01 N/A N/A transcript:Os01t0105900-01 Os01t0105900-01 N/A N/A +1 irgsp five_prime_UTR 313065 313170 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-78 N/A N/A transcript:Os01t0105900-01 N/A N/A N/A +1 irgsp three_prime_UTR 309520 309821 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-68 N/A N/A transcript:Os01t0105900-01 N/A N/A N/A +1 irgsp gene 319754 322205 . 1 . N/A protein_coding N/A Similar to RER1A protein (AtRER1A). (Os01t0106200-01) N/A N/A N/A Os01g0106200 gene:Os01g0106200 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 319754 322205 . 1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0106200-01 N/A N/A gene:Os01g0106200 N/A N/A Os01t0106200-01 +1 irgsp exon 319754 320236 . 1 . N/A N/A 1 N/A 2 -1 Os01t0106200-01.exon1 N/A Os01t0106200-01.exon1 N/A Os01t0106200-01.exon1 transcript:Os01t0106200-01 N/A 1 N/A +1 irgsp exon 321468 321648 . 1 . N/A N/A 1 N/A 0 2 Os01t0106200-01.exon2 N/A Os01t0106200-01.exon2 N/A Os01t0106200-01.exon2 transcript:Os01t0106200-01 N/A 2 N/A +1 irgsp exon 321928 322205 . 1 . N/A N/A 1 N/A -1 0 Os01t0106200-01.exon3 N/A Os01t0106200-01.exon3 N/A Os01t0106200-01.exon3 transcript:Os01t0106200-01 N/A 3 N/A +1 irgsp CDS 319875 320236 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0106200-01 N/A N/A transcript:Os01t0106200-01 Os01t0106200-01 N/A N/A +1 irgsp CDS 321468 321648 . 1 1 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0106200-01 N/A N/A transcript:Os01t0106200-01 Os01t0106200-01 N/A N/A +1 irgsp CDS 321928 321975 . 1 0 N/A N/A N/A N/A N/A N/A N/A N/A CDS:Os01t0106200-01 N/A N/A transcript:Os01t0106200-01 Os01t0106200-01 N/A N/A +1 irgsp five_prime_UTR 319754 319874 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-five_prime_utr-79 N/A N/A transcript:Os01t0106200-01 N/A N/A N/A +1 irgsp three_prime_UTR 321976 322205 . 1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-69 N/A N/A transcript:Os01t0106200-01 N/A N/A N/A +1 irgsp gene 322591 323923 . -1 . N/A protein_coding N/A Similar to Isoflavone reductase homolog IRL (EC 1.3.1.-). (Os01t0106300-01) N/A N/A N/A Os01g0106300 gene:Os01g0106300 irgspv1.0-20170804-genes N/A N/A N/A N/A N/A +1 irgsp mRNA 322591 323923 . -1 . N/A protein_coding N/A N/A N/A N/A N/A N/A transcript:Os01t0106300-01 N/A N/A gene:Os01g0106300 N/A N/A Os01t0106300-01 +1 irgsp exon 322591 323923 . -1 . N/A N/A 1 N/A -1 1 Os01t0106300-01.exon2 N/A Os01t0106300-01.exon2 N/A Os01t0106300-01.exon2 transcript:Os01t0106300-01 N/A 2 N/A +1 irgsp three_prime_UTR 322591 322809 . -1 . N/A N/A N/A N/A N/A N/A N/A N/A agat-three_prime_utr-70 N/A N/A transcript:Os01t0106300-01 N/A N/A N/A diff --git a/src/agat/agat_convert_sp_gff2tsv/test_data/script.sh b/src/agat/agat_convert_sp_gff2tsv/test_data/script.sh new file mode 100755 index 00000000..ba7ba143 --- /dev/null +++ b/src/agat/agat_convert_sp_gff2tsv/test_data/script.sh @@ -0,0 +1,10 @@ +#!/bin/bash + +# clone repo +if [ ! -d /tmp/agat_source ]; then + git clone --depth 1 --single-branch --branch master https://github.com/NBISweden/AGAT /tmp/agat_source +fi + +# copy test data +cp -r /tmp/agat_source/t/scripts_output/out/agat_convert_sp_gff2tsv_1.tsv src/agat/agat_convert_sp_gff2tsv/test_data +cp -r /tmp/agat_source/t/scripts_output/in/1.gff src/agat/agat_convert_sp_gff2tsv/test_data diff --git a/src/agat/agat_convert_sp_gxf2gxf/config.vsh.yaml b/src/agat/agat_convert_sp_gxf2gxf/config.vsh.yaml new file mode 100644 index 00000000..9e77b09d --- /dev/null +++ b/src/agat/agat_convert_sp_gxf2gxf/config.vsh.yaml @@ -0,0 +1,75 @@ +name: agat_convert_sp_gxf2gxf +namespace: agat +description: | + This script fixes and/or standardizes any GTF/GFF file into full sorted + GTF/GFF file. It AGAT parser removes duplicate features, fixes + duplicated IDs, adds missing ID and/or Parent attributes, deflates + factorized attributes (attributes with several parents are duplicated + with uniq ID), add missing features when possible (e.g. add exon if only + CDS described, add UTR if CDS and exon described), fix feature locations + (e.g. check exon is embedded in the parent features mRNA, gene), etc... + + All AGAT's scripts with the _sp_ prefix use the AGAT parser, before to + perform any supplementary task. So, it is not necessary to run this + script prior the use of any other _sp_ script. +keywords: [gene annotations, GFF conversion] +links: + homepage: https://github.com/NBISweden/AGAT + documentation: https://agat.readthedocs.io/en/latest/tools/agat_convert_sp_gxf2gxf.html + issue_tracker: https://github.com/NBISweden/AGAT/issues + repository: https://github.com/NBISweden/AGAT +references: + doi: 10.5281/zenodo.3552717 +license: GPL-3.0 +authors: + - __merge__: /src/_authors/leila_paquay.yaml + roles: [ author, maintainer ] + +argument_groups: + - name: Inputs + arguments: + - name: --gxf + alternatives: [-g, --gtf, --gff] + description: | + String - Input GTF/GFF file. Compressed file with .gz extension is accepted. + type: file + required: true + direction: input + example: input.gff + - name: Outputs + arguments: + - name: --output + alternatives: [-o] + description: | + String - Output GFF file. If no output file is specified, the output will be written to STDOUT. + type: file + direction: output + required: true + example: output.gff + - name: Arguments + arguments: + - name: --config + alternatives: [-c] + description: | + String - Input agat config file. By default AGAT takes as input agat_config.yaml file from the working directory if any, otherwise it takes the original agat_config.yaml shipped with AGAT. To get the agat_config.yaml locally type: "agat config --expose". The --config option gives you the possibility to use your own AGAT config file (located elsewhere or named differently). + type: file + required: false + example: custom_agat_config.yaml +resources: + - type: bash_script + path: script.sh +test_resources: + - type: bash_script + path: test.sh + - type: file + path: test_data +engines: + - type: docker + image: quay.io/biocontainers/agat:1.4.0--pl5321hdfd78af_0 + setup: + - type: docker + run: | + agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.txt +runners: + - type: executable + - type: nextflow \ No newline at end of file diff --git a/src/agat/agat_convert_sp_gxf2gxf/help.txt b/src/agat/agat_convert_sp_gxf2gxf/help.txt new file mode 100644 index 00000000..7658c4ed --- /dev/null +++ b/src/agat/agat_convert_sp_gxf2gxf/help.txt @@ -0,0 +1,73 @@ +```sh +agat_convert_sp_gxf2gxf.pl --help +``` + + ------------------------------------------------------------------------------ +| Another GFF Analysis Toolkit (AGAT) - Version: v1.4.0 | +| https://github.com/NBISweden/AGAT | +| National Bioinformatics Infrastructure Sweden (NBIS) - www.nbis.se | + ------------------------------------------------------------------------------ + + +Name: + agat_convert_sp_gxf2gxf.pl + +Description: + This script fixes and/or standardizes any GTF/GFF file into full sorted + GTF/GFF file. It AGAT parser removes duplicate features, fixes + duplicated IDs, adds missing ID and/or Parent attributes, deflates + factorized attributes (attributes with several parents are duplicated + with uniq ID), add missing features when possible (e.g. add exon if only + CDS described, add UTR if CDS and exon described), fix feature locations + (e.g. check exon is embedded in the parent features mRNA, gene), etc... + + All AGAT's scripts with the _sp_ prefix use the AGAT parser, before to + perform any supplementary task. So, it is not necessary to run this + script prior the use of any other _sp_ script. + +Usage: + agat_convert_sp_gxf2gxf.pl -g infile.gff [ -o outfile ] + agat_convert_sp_gxf2gxf.pl --help + +Options: + -g, --gtf, --gff or --gxf + String - Input GTF/GFF file. Compressed file with .gz extension + is accepted. + + -o or --output + String - Output GFF file. If no output file is specified, the + output will be written to STDOUT. + + -c or --config + String - Input agat config file. By default AGAT takes as input + agat_config.yaml file from the working directory if any, + otherwise it takes the orignal agat_config.yaml shipped with + AGAT. To get the agat_config.yaml locally type: "agat config + --expose". The --config option gives you the possibility to use + your own AGAT config file (located elsewhere or named + differently). + + -h or --help + Boolean - Display this helpful text. + +Feedback: + Did you find a bug?: + Do not hesitate to report bugs to help us keep track of the bugs and + their resolution. Please use the GitHub issue tracking system available + at this address: + + https://github.com/NBISweden/AGAT/issues + + Ensure that the bug was not already reported by searching under Issues. + If you're unable to find an (open) issue addressing the problem, open a new one. + Try as much as possible to include in the issue when relevant: + - a clear description, + - as much relevant information as possible, + - the command used, + - a data sample, + - an explanation of the expected behaviour that is not occurring. + + Do you want to contribute?: + You are very welcome, visit this address for the Contributing + guidelines: + https://github.com/NBISweden/AGAT/blob/master/CONTRIBUTING.md \ No newline at end of file diff --git a/src/agat/agat_convert_sp_gxf2gxf/script.sh b/src/agat/agat_convert_sp_gxf2gxf/script.sh new file mode 100644 index 00000000..2d532a41 --- /dev/null +++ b/src/agat/agat_convert_sp_gxf2gxf/script.sh @@ -0,0 +1,9 @@ +#!/bin/bash + +## VIASH START +## VIASH END + +agat_convert_sp_gxf2gxf.pl \ + -g "$par_gxf" \ + -o "$par_output" \ + ${par_config:+--config "${par_config}"} diff --git a/src/agat/agat_convert_sp_gxf2gxf/test.sh b/src/agat/agat_convert_sp_gxf2gxf/test.sh new file mode 100644 index 00000000..99574b5b --- /dev/null +++ b/src/agat/agat_convert_sp_gxf2gxf/test.sh @@ -0,0 +1,28 @@ +#!/bin/bash + +## VIASH START +## VIASH END + +test_dir="${meta_resources_dir}/test_data" +out_dir="${meta_resources_dir}/out_data" + +echo "> Run $meta_name with test data" +"$meta_executable" \ + --gxf "$test_dir/0_test.gff" \ + --output "$out_dir/output.gff" + +echo ">> Checking output" +[ ! -f "$out_dir/output.gff" ] && echo "Output file output.gff does not exist" && exit 1 + +echo ">> Check if output is empty" +[ ! -s "$out_dir/output.gff" ] && echo "Output file output.gff is empty" && exit 1 + + +echo ">> Check if output matches expected output" +diff "$out_dir/output.gff" "$test_dir/0_correct_output.gff" +if [ $? -ne 0 ]; then + echo "Output file output.gff does not match expected output" + exit 1 +fi + +echo "> Test successful" \ No newline at end of file diff --git a/src/agat/agat_convert_sp_gxf2gxf/test_data/0_correct_output.gff b/src/agat/agat_convert_sp_gxf2gxf/test_data/0_correct_output.gff new file mode 100644 index 00000000..fafe86ed --- /dev/null +++ b/src/agat/agat_convert_sp_gxf2gxf/test_data/0_correct_output.gff @@ -0,0 +1,36 @@ +##gff-version 3 +scaffold625 maker gene 337818 343277 . + . ID=CLUHARG00000005458;Name=TUBB3_2 +scaffold625 maker mRNA 337818 343277 . + . ID=CLUHART00000008717;Parent=CLUHARG00000005458 +scaffold625 maker exon 337818 337971 . + . ID=CLUHART00000008717:exon:1404;Parent=CLUHART00000008717 +scaffold625 maker exon 340733 340841 . + . ID=CLUHART00000008717:exon:1405;Parent=CLUHART00000008717 +scaffold625 maker exon 341518 341628 . + . ID=CLUHART00000008717:exon:1406;Parent=CLUHART00000008717 +scaffold625 maker exon 341964 343277 . + . ID=CLUHART00000008717:exon:1407;Parent=CLUHART00000008717 +scaffold625 maker CDS 337915 337971 . + 0 ID=CLUHART00000008717:cds;Parent=CLUHART00000008717 +scaffold625 maker CDS 340733 340841 . + 0 ID=CLUHART00000008717:cds;Parent=CLUHART00000008717 +scaffold625 maker CDS 341518 341628 . + 2 ID=CLUHART00000008717:cds;Parent=CLUHART00000008717 +scaffold625 maker CDS 341964 343033 . + 2 ID=CLUHART00000008717:cds;Parent=CLUHART00000008717 +scaffold625 maker five_prime_UTR 337818 337914 . + . ID=CLUHART00000008717:five_prime_utr;Parent=CLUHART00000008717 +scaffold625 maker three_prime_UTR 343034 343277 . + . ID=CLUHART00000008717:three_prime_utr;Parent=CLUHART00000008717 +scaffold789 maker gene 558184 564780 . + . ID=CLUHARG00000003852;Name=PF11_0240 +scaffold789 maker mRNA 558184 564780 . + . ID=CLUHART00000006146;Parent=CLUHARG00000003852 +scaffold789 maker exon 558184 560123 . + . ID=CLUHART00000006146:exon:995;Parent=CLUHART00000006146 +scaffold789 maker exon 561401 561519 . + . ID=CLUHART00000006146:exon:996;Parent=CLUHART00000006146 +scaffold789 maker exon 564171 564235 . + . ID=CLUHART00000006146:exon:997;Parent=CLUHART00000006146 +scaffold789 maker exon 564372 564780 . + . ID=CLUHART00000006146:exon:998;Parent=CLUHART00000006146 +scaffold789 maker CDS 558191 560123 . + 0 ID=CLUHART00000006146:cds;Parent=CLUHART00000006146 +scaffold789 maker CDS 561401 561519 . + 2 ID=CLUHART00000006146:cds;Parent=CLUHART00000006146 +scaffold789 maker CDS 564171 564235 . + 0 ID=CLUHART00000006146:cds;Parent=CLUHART00000006146 +scaffold789 maker CDS 564372 564588 . + 1 ID=CLUHART00000006146:cds;Parent=CLUHART00000006146 +scaffold789 maker five_prime_UTR 558184 558190 . + . ID=CLUHART00000006146:five_prime_utr;Parent=CLUHART00000006146 +scaffold789 maker three_prime_UTR 564589 564780 . + . ID=CLUHART00000006146:three_prime_utr;Parent=CLUHART00000006146 +scaffold789 maker mRNA 558184 564780 . + . ID=CLUHART00000006147;Parent=CLUHARG00000003852 +scaffold789 maker exon 558184 560123 . + . ID=CLUHART00000006147:exon:997;Parent=CLUHART00000006147 +scaffold789 maker exon 561401 561519 . + . ID=CLUHART00000006147:exon:998;Parent=CLUHART00000006147 +scaffold789 maker exon 562057 562121 . + . ID=CLUHART00000006147:exon:999;Parent=CLUHART00000006147 +scaffold789 maker exon 564372 564780 . + . ID=CLUHART00000006147:exon:1000;Parent=CLUHART00000006147 +scaffold789 maker CDS 558191 560123 . + 0 ID=CLUHART00000006147:cds;Parent=CLUHART00000006147 +scaffold789 maker CDS 561401 561519 . + 2 ID=CLUHART00000006147:cds;Parent=CLUHART00000006147 +scaffold789 maker CDS 562057 562121 . + 0 ID=CLUHART00000006147:cds;Parent=CLUHART00000006147 +scaffold789 maker CDS 564372 564588 . + 1 ID=CLUHART00000006147:cds;Parent=CLUHART00000006147 +scaffold789 maker five_prime_UTR 558184 558190 . + . ID=CLUHART00000006147:five_prime_utr;Parent=CLUHART00000006147 +scaffold789 maker three_prime_UTR 564589 564780 . + . ID=CLUHART00000006147:three_prime_utr;Parent=CLUHART00000006147 diff --git a/src/agat/agat_convert_sp_gxf2gxf/test_data/0_test.gff b/src/agat/agat_convert_sp_gxf2gxf/test_data/0_test.gff new file mode 100644 index 00000000..fafe86ed --- /dev/null +++ b/src/agat/agat_convert_sp_gxf2gxf/test_data/0_test.gff @@ -0,0 +1,36 @@ +##gff-version 3 +scaffold625 maker gene 337818 343277 . + . ID=CLUHARG00000005458;Name=TUBB3_2 +scaffold625 maker mRNA 337818 343277 . + . ID=CLUHART00000008717;Parent=CLUHARG00000005458 +scaffold625 maker exon 337818 337971 . + . ID=CLUHART00000008717:exon:1404;Parent=CLUHART00000008717 +scaffold625 maker exon 340733 340841 . + . ID=CLUHART00000008717:exon:1405;Parent=CLUHART00000008717 +scaffold625 maker exon 341518 341628 . + . ID=CLUHART00000008717:exon:1406;Parent=CLUHART00000008717 +scaffold625 maker exon 341964 343277 . + . ID=CLUHART00000008717:exon:1407;Parent=CLUHART00000008717 +scaffold625 maker CDS 337915 337971 . + 0 ID=CLUHART00000008717:cds;Parent=CLUHART00000008717 +scaffold625 maker CDS 340733 340841 . + 0 ID=CLUHART00000008717:cds;Parent=CLUHART00000008717 +scaffold625 maker CDS 341518 341628 . + 2 ID=CLUHART00000008717:cds;Parent=CLUHART00000008717 +scaffold625 maker CDS 341964 343033 . + 2 ID=CLUHART00000008717:cds;Parent=CLUHART00000008717 +scaffold625 maker five_prime_UTR 337818 337914 . + . ID=CLUHART00000008717:five_prime_utr;Parent=CLUHART00000008717 +scaffold625 maker three_prime_UTR 343034 343277 . + . ID=CLUHART00000008717:three_prime_utr;Parent=CLUHART00000008717 +scaffold789 maker gene 558184 564780 . + . ID=CLUHARG00000003852;Name=PF11_0240 +scaffold789 maker mRNA 558184 564780 . + . ID=CLUHART00000006146;Parent=CLUHARG00000003852 +scaffold789 maker exon 558184 560123 . + . ID=CLUHART00000006146:exon:995;Parent=CLUHART00000006146 +scaffold789 maker exon 561401 561519 . + . ID=CLUHART00000006146:exon:996;Parent=CLUHART00000006146 +scaffold789 maker exon 564171 564235 . + . ID=CLUHART00000006146:exon:997;Parent=CLUHART00000006146 +scaffold789 maker exon 564372 564780 . + . ID=CLUHART00000006146:exon:998;Parent=CLUHART00000006146 +scaffold789 maker CDS 558191 560123 . + 0 ID=CLUHART00000006146:cds;Parent=CLUHART00000006146 +scaffold789 maker CDS 561401 561519 . + 2 ID=CLUHART00000006146:cds;Parent=CLUHART00000006146 +scaffold789 maker CDS 564171 564235 . + 0 ID=CLUHART00000006146:cds;Parent=CLUHART00000006146 +scaffold789 maker CDS 564372 564588 . + 1 ID=CLUHART00000006146:cds;Parent=CLUHART00000006146 +scaffold789 maker five_prime_UTR 558184 558190 . + . ID=CLUHART00000006146:five_prime_utr;Parent=CLUHART00000006146 +scaffold789 maker three_prime_UTR 564589 564780 . + . ID=CLUHART00000006146:three_prime_utr;Parent=CLUHART00000006146 +scaffold789 maker mRNA 558184 564780 . + . ID=CLUHART00000006147;Parent=CLUHARG00000003852 +scaffold789 maker exon 558184 560123 . + . ID=CLUHART00000006147:exon:997;Parent=CLUHART00000006147 +scaffold789 maker exon 561401 561519 . + . ID=CLUHART00000006147:exon:998;Parent=CLUHART00000006147 +scaffold789 maker exon 562057 562121 . + . ID=CLUHART00000006147:exon:999;Parent=CLUHART00000006147 +scaffold789 maker exon 564372 564780 . + . ID=CLUHART00000006147:exon:1000;Parent=CLUHART00000006147 +scaffold789 maker CDS 558191 560123 . + 0 ID=CLUHART00000006147:cds;Parent=CLUHART00000006147 +scaffold789 maker CDS 561401 561519 . + 2 ID=CLUHART00000006147:cds;Parent=CLUHART00000006147 +scaffold789 maker CDS 562057 562121 . + 0 ID=CLUHART00000006147:cds;Parent=CLUHART00000006147 +scaffold789 maker CDS 564372 564588 . + 1 ID=CLUHART00000006147:cds;Parent=CLUHART00000006147 +scaffold789 maker five_prime_UTR 558184 558190 . + . ID=CLUHART00000006147:five_prime_utr;Parent=CLUHART00000006147 +scaffold789 maker three_prime_UTR 564589 564780 . + . ID=CLUHART00000006147:three_prime_utr;Parent=CLUHART00000006147 diff --git a/src/agat/agat_convert_sp_gxf2gxf/test_data/script.sh b/src/agat/agat_convert_sp_gxf2gxf/test_data/script.sh new file mode 100755 index 00000000..831dd963 --- /dev/null +++ b/src/agat/agat_convert_sp_gxf2gxf/test_data/script.sh @@ -0,0 +1,10 @@ +#!/bin/bash + +# clone repo +if [ ! -d /tmp/agat_source ]; then + git clone --depth 1 --single-branch --branch master https://github.com/NBISweden/AGAT /tmp/agat_source +fi + +# copy test data +cp -r /tmp/agat_source/t/gff_syntax/in/0_test.gff src/agat/agat_convert_sp_gxf2gxf/test_data +cp -r /tmp/agat_source/t/gff_syntax/out/0_correct_output.gff src/agat/agat_convert_sp_gxf2gxf/test_data diff --git a/src/bedtools/bedtools_bamtofastq/config.vsh.yaml b/src/bedtools/bedtools_bamtofastq/config.vsh.yaml new file mode 100644 index 00000000..cd30cb71 --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/config.vsh.yaml @@ -0,0 +1,74 @@ +name: bedtools_bamtofastq +namespace: bedtools +description: | + Conversion tool for extracting FASTQ records from sequence alignments in BAM format. +keywords: [Conversion ,BAM, FASTQ] +links: + documentation: https://bedtools.readthedocs.io/en/latest/content/tools/bamtofastq.html + repository: https://github.com/arq5x/bedtools2 + homepage: https://bedtools.readthedocs.io/en/latest/# + issue_tracker: https://github.com/arq5x/bedtools2/issues +references: + doi: 10.1093/bioinformatics/btq033 +license: MIT +requirements: + commands: [bedtools] +authors: + - __merge__: /src/_authors/theodoro_gasperin.yaml + roles: [ author, maintainer ] + +argument_groups: + - name: Inputs + arguments: + - name: --input + alternatives: -i + type: file + description: Input BAM file to be converted to FASTQ. + required: true + + - name: Outputs + arguments: + - name: --fastq + alternatives: -fq + direction: output + type: file + description: Output FASTQ file. + required: true + + - name: --fastq2 + alternatives: -fq2 + type: file + direction: output + description: | + FASTQ for second end. Used if BAM contains paired-end data. + BAM should be sorted by query name is creating paired FASTQ. + + - name: Options + arguments: + - name: --tags + type: boolean_true + description: | + Create FASTQ based on the mate info in the BAM R2 and Q2 tags. + +resources: + - type: bash_script + path: script.sh + +test_resources: + - type: bash_script + path: test.sh + - path: test_data + +engines: + - type: docker + image: debian:stable-slim + setup: + - type: apt + packages: [bedtools, procps] + - type: docker + run: | + echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var/software_versions.txt + +runners: + - type: executable + - type: nextflow \ No newline at end of file diff --git a/src/bedtools/bedtools_bamtofastq/help.txt b/src/bedtools/bedtools_bamtofastq/help.txt new file mode 100644 index 00000000..ed2b7468 --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/help.txt @@ -0,0 +1,25 @@ +```bash +bedtools bamtofastq +``` + +Tool: bedtools bamtofastq (aka bamToFastq) +Version: v2.30.0 +Summary: Convert BAM alignments to FASTQ files. + +Usage: bamToFastq [OPTIONS] -i -fq + +Options: + -fq2 FASTQ for second end. Used if BAM contains paired-end data. + BAM should be sorted by query name is creating paired FASTQ. + + -tags Create FASTQ based on the mate info + in the BAM R2 and Q2 tags. + +Tips: + If you want to create a single, interleaved FASTQ file + for paired-end data, you can just write both to /dev/stdout: + + bedtools bamtofastq -i x.bam -fq /dev/stdout -fq2 /dev/stdout > x.ilv.fq + + Also, the samtools fastq command has more fucntionality and is a useful alternative. + diff --git a/src/bedtools/bedtools_bamtofastq/script.sh b/src/bedtools/bedtools_bamtofastq/script.sh new file mode 100644 index 00000000..4b32f2d7 --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/script.sh @@ -0,0 +1,19 @@ +#!/bin/bash + +## VIASH START +## VIASH END + +# Exit on error +set -eo pipefail + +# Unset parameters +[[ "$par_tags" == "false" ]] && unset par_tags + +# Execute bedtools bamtofastq with the provided arguments +bedtools bamtofastq \ + ${par_tags:+-tags} \ + ${par_fastq2:+-fq2 "$par_fastq2"} \ + -i "$par_input" \ + -fq "$par_fastq" + + diff --git a/src/bedtools/bedtools_bamtofastq/test.sh b/src/bedtools/bedtools_bamtofastq/test.sh new file mode 100644 index 00000000..6d913d85 --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/test.sh @@ -0,0 +1,84 @@ +#!/bin/bash + +# exit on error +set -eo pipefail + +test_data="$meta_resources_dir/test_data" + +############################################# +# helper functions +assert_file_exists() { + [ -f "$1" ] || { echo "File '$1' does not exist" && exit 1; } +} +assert_file_not_empty() { + [ -s "$1" ] || { echo "File '$1' is empty but shouldn't be" && exit 1; } +} +assert_file_contains() { + grep -q "$2" "$1" || { echo "File '$1' does not contain '$2'" && exit 1; } +} +assert_identical_content() { + diff -a "$2" "$1" \ + || (echo "Files are not identical!" && exit 1) +} +############################################# + +# Test 1: normal conversion +mkdir test1 +cd test1 + +echo "> Run bedtools bamtofastq on BAM file" +"$meta_executable" \ + --input "$test_data/example.bam" \ + --fastq "output.fastq" + +# checks +assert_file_exists "output.fastq" +assert_file_not_empty "output.fastq" +assert_identical_content "output.fastq" "$test_data/expected.fastq" +echo "- test1 succeeded -" + +cd .. + +# Test 2: with tags +mkdir test2 +cd test2 + +echo "> Run bedtools bamtofastq on BAM file with tags" +"$meta_executable" \ + --input "$test_data/example.bam" \ + --fastq "output.fastq" \ + --tags + +# checks +assert_file_exists "output.fastq" +assert_file_not_empty "output.fastq" +assert_identical_content "output.fastq" "$test_data/expected.fastq" +echo "- test2 succeeded -" + +cd .. + +# Test 3: with option fq2 +mkdir test3 +cd test3 + +echo "> Run bedtools bamtofastq on BAM file with output_fq2" +"$meta_executable" \ + --input "$test_data/example.bam" \ + --fastq "output1.fastq" \ + --fastq2 "output2.fastq" + +# checks +assert_file_exists "output1.fastq" +assert_file_not_empty "output1.fastq" +assert_identical_content "output1.fastq" "$test_data/expected_1.fastq" +assert_file_exists "output2.fastq" +assert_file_not_empty "output2.fastq" +assert_identical_content "output2.fastq" "$test_data/expected_2.fastq" +echo "- test3 succeeded -" + +cd .. + +echo "All tests succeeded" +exit 0 + + diff --git a/src/bedtools/bedtools_bamtofastq/test_data/example.bam b/src/bedtools/bedtools_bamtofastq/test_data/example.bam new file mode 100644 index 00000000..ffc075ab Binary files /dev/null and b/src/bedtools/bedtools_bamtofastq/test_data/example.bam differ diff --git a/src/bedtools/bedtools_bamtofastq/test_data/example.sam b/src/bedtools/bedtools_bamtofastq/test_data/example.sam new file mode 100644 index 00000000..4afb0aef --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/test_data/example.sam @@ -0,0 +1,3 @@ +@SQ SN:chr2:172936693-172938111 LN:1418 +my_read 99 chr2:172936693-172938111 129 60 100M = 429 400 CTAACTAGCCTGGGAAAAAAGGATAGTGTCTCTCTGTTCTTTCATAGGAAATGTTGAATCAGACCCCTACTGGGAAAAGAAATTTAATGCATATCTCACT * XT:A:U NM:i:0 SM:i:37 AM:i:37 X0:i:1 X1:i:0 XM:i:0 XO:i:0 XG:i:0 MD:Z:100 +my_read 147 chr2:172936693-172938111 429 60 100M = 129 -400 TCGAGCTCTGCATTCATGGCTGTGTCTAAAGGGCATGTCAGCCTTTGATTCTCTCTGAGAGGTAATTATCCTTTTCCTGTCACGGAACAACAAATGATAG * XT:A:U NM:i:0 SM:i:37 AM:i:37 X0:i:1 X1:i:0 XM:i:0 XO:i:0 XG:i:0 MD:Z:100 diff --git a/src/bedtools/bedtools_bamtofastq/test_data/expected.fastq b/src/bedtools/bedtools_bamtofastq/test_data/expected.fastq new file mode 100644 index 00000000..358331d4 --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/test_data/expected.fastq @@ -0,0 +1,16 @@ +@my_read +CTAACTAGCCTGGGAAAAAAGGATAGTGTCTCTCTGTTCTTTCATAGGAAATGTTGAATCAGACCCCTACTGGGAAAAGAAATTTAATGCATATCTCACT ++ +!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! +@my_read +CTAACTAGCCTGGGAAAAAAGGATAGTGTCTCTCTGTTCTTTCATAGGAAATGTTGAATCAGACCCCTACTGGGAAAAGAAATTTAATGCATATCTCACT ++ +!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! +@my_read +CTATCATTTGTTGTTCCGTGACAGGAAAAGGATAATTACCTCTCAGAGAGAATCAAAGGCTGACATGCCCTTTAGACACAGCCATGAATGCAGAGCTCGA ++ +!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! +@my_read +CTATCATTTGTTGTTCCGTGACAGGAAAAGGATAATTACCTCTCAGAGAGAATCAAAGGCTGACATGCCCTTTAGACACAGCCATGAATGCAGAGCTCGA ++ +!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! diff --git a/src/bedtools/bedtools_bamtofastq/test_data/expected_1.fastq b/src/bedtools/bedtools_bamtofastq/test_data/expected_1.fastq new file mode 100644 index 00000000..c5dfe571 --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/test_data/expected_1.fastq @@ -0,0 +1,4 @@ +@my_read/1 +CTAACTAGCCTGGGAAAAAAGGATAGTGTCTCTCTGTTCTTTCATAGGAAATGTTGAATCAGACCCCTACTGGGAAAAGAAATTTAATGCATATCTCACT ++ +!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! diff --git a/src/bedtools/bedtools_bamtofastq/test_data/expected_2.fastq b/src/bedtools/bedtools_bamtofastq/test_data/expected_2.fastq new file mode 100644 index 00000000..50d1bd62 --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/test_data/expected_2.fastq @@ -0,0 +1,4 @@ +@my_read/2 +CTATCATTTGTTGTTCCGTGACAGGAAAAGGATAATTACCTCTCAGAGAGAATCAAAGGCTGACATGCCCTTTAGACACAGCCATGAATGCAGAGCTCGA ++ +!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! diff --git a/src/bedtools/bedtools_bamtofastq/test_data/script.sh b/src/bedtools/bedtools_bamtofastq/test_data/script.sh new file mode 100755 index 00000000..df595510 --- /dev/null +++ b/src/bedtools/bedtools_bamtofastq/test_data/script.sh @@ -0,0 +1,13 @@ +#!/bin/bash + +# create sam file +printf "@SQ\tSN:chr2:172936693-172938111\tLN:1418\n" > example.sam +printf "my_read\t99\tchr2:172936693-172938111\t129\t60\t100M\t=\t429\t400\tCTAACTAGCCTGGGAAAAAAGGATAGTGTCTCTCTGTTCTTTCATAGGAAATGTTGAATCAGACCCCTACTGGGAAAAGAAATTTAATGCATATCTCACT\t*\tXT:A:U\tNM:i:0\tSM:i:37\tAM:i:37\tX0:i:1\tX1:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tMD:Z:100\n" >> example.sam +printf "my_read\t147\tchr2:172936693-172938111\t429\t60\t100M\t=\t129\t-400\tTCGAGCTCTGCATTCATGGCTGTGTCTAAAGGGCATGTCAGCCTTTGATTCTCTCTGAGAGGTAATTATCCTTTTCCTGTCACGGAACAACAAATGATAG\t*\tXT:A:U\tNM:i:0\tSM:i:37\tAM:i:37\tX0:i:1\tX1:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tMD:Z:100\n" >> example.sam + +# create bam file +# samtools view -b example.sam > example.bam + +# create fastq files +# bedtools bamtofastq -i example.bam -fq expected.fastq +# bedtools bamtofastq -i example.bam -fq expected_1.fastq -fq2 expected_2.fastq diff --git a/src/bedtools/bedtools_bedtobam/config.vsh.yaml b/src/bedtools/bedtools_bedtobam/config.vsh.yaml new file mode 100644 index 00000000..bd3c48f5 --- /dev/null +++ b/src/bedtools/bedtools_bedtobam/config.vsh.yaml @@ -0,0 +1,91 @@ +name: bedtools_bedtobam +namespace: bedtools +description: Converts feature records (bed/gff/vcf) to BAM format. +keywords: [Converts, BED, GFF, VCF, BAM] +links: + documentation: https://bedtools.readthedocs.io/en/latest/content/tools/bedtobam.html + repository: https://github.com/arq5x/bedtools2 + homepage: https://bedtools.readthedocs.io/en/latest/# + issue_tracker: https://github.com/arq5x/bedtools2/issues +references: + doi: 10.1093/bioinformatics/btq033 +license: MIT +requirements: + commands: [bedtools] +authors: + - __merge__: /src/_authors/theodoro_gasperin.yaml + roles: [ author, maintainer ] + +argument_groups: + - name: Inputs + arguments: + - name: --input + alternatives: -i + type: file + description: Input file (bed/gff/vcf). + required: true + + - name: --genome + alternatives: -g + type: file + description: | + Input genome file. + NOTE: This is not a fasta file. This is a two-column tab-delimited file + where the first column is the chromosome name and the second their sizes. + required: true + + - name: Outputs + arguments: + - name: --output + alternatives: -o + type: file + direction: output + description: Output BAM file to be written. + + - name: Options + arguments: + - name: --map_quality + alternatives: -mapq + type: integer + description: | + Set the mappinq quality for the BAM records. + min: 0 + max: 255 + default: 255 + + - name: --bed12 + type: boolean_true + description: | + The BED file is in BED12 format. The BAM CIGAR + string will reflect BED "blocks". + + - name: --uncompress_bam + alternatives: -ubam + type: boolean_true + description: | + Write uncompressed BAM output. Default writes compressed BAM. + +resources: + - type: bash_script + path: script.sh + +test_resources: + - type: bash_script + path: test.sh + +engines: + - type: docker + image: debian:stable-slim + setup: + - type: apt + packages: [bedtools, procps] + - type: docker + run: | + echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var/software_versions.txt + test_setup: + - type: apt + packages: [samtools] + +runners: + - type: executable + - type: nextflow \ No newline at end of file diff --git a/src/bedtools/bedtools_bedtobam/help.txt b/src/bedtools/bedtools_bedtobam/help.txt new file mode 100644 index 00000000..c9fa1c6f --- /dev/null +++ b/src/bedtools/bedtools_bedtobam/help.txt @@ -0,0 +1,21 @@ +```bash +bedtools bedtobam +``` + +Tool: bedtools bedtobam (aka bedToBam) +Version: v2.30.0 +Summary: Converts feature records to BAM format. + +Usage: bedtools bedtobam [OPTIONS] -i -g + +Options: + -mapq Set the mappinq quality for the BAM records. + (INT) Default: 255 + + -bed12 The BED file is in BED12 format. The BAM CIGAR + string will reflect BED "blocks". + + -ubam Write uncompressed BAM output. Default writes compressed BAM. + +Notes: + (1) BED files must be at least BED4 to create BAM (needs name field). diff --git a/src/bedtools/bedtools_bedtobam/script.sh b/src/bedtools/bedtools_bedtobam/script.sh new file mode 100644 index 00000000..ac96ae20 --- /dev/null +++ b/src/bedtools/bedtools_bedtobam/script.sh @@ -0,0 +1,19 @@ +#!/bin/bash + +## VIASH START +## VIASH END + +set -eo pipefail + +# Unset parameters +[[ "$par_bed12" == "false" ]] && unset par_bed12 +[[ "$par_uncompress_bam" == "false" ]] && unset par_uncompress_bam + +# Execute bedtools bed to bam +bedtools bedtobam \ + ${par_bed12:+-bed12} \ + ${par_uncompress_bam:+-ubam} \ + ${par_map_quality:+-mapq "$par_map_quality"} \ + -i "$par_input" \ + -g "$par_genome" \ + > "$par_output" diff --git a/src/bedtools/bedtools_bedtobam/test.sh b/src/bedtools/bedtools_bedtobam/test.sh new file mode 100644 index 00000000..14d04241 --- /dev/null +++ b/src/bedtools/bedtools_bedtobam/test.sh @@ -0,0 +1,188 @@ +#!/bin/bash + +# exit on error +set -eo pipefail + +############################################# +# helper functions +assert_file_exists() { + [ -f "$1" ] || { echo "File '$1' does not exist" && exit 1; } +} +assert_file_not_empty() { + [ -s "$1" ] || { echo "File '$1' is empty but shouldn't be" && exit 1; } +} +assert_file_contains() { + grep -q "$2" "$1" || { echo "File '$1' does not contain '$2'" && exit 1; } +} +assert_identical_content() { + diff -a "$2" "$1" \ + || (echo "Files are not identical!" && exit 1) +} +############################################# + +# Create directories for tests +echo "Creating Test Data..." +TMPDIR=$(mktemp -d "$meta_temp_dir/XXXXXX") +function clean_up { + [[ -d "$TMPDIR" ]] && rm -r "$TMPDIR" +} +trap clean_up EXIT + +# Create and populate input files +printf "chr1\t248956422\nchr3\t242193529\nchr2\t198295559\n" > "$TMPDIR/genome.txt" +printf "chr2:172936693-172938111\t128\t228\tmy_read/1\t37\t+\nchr2:172936693-172938111\t428\t528\tmy_read/2\t37\t-\n" > "$TMPDIR/example.bed" +printf "chr2:172936693-172938111\t128\t228\tmy_read/1\t60\t+\t128\t228\t255,0,0\t1\t100\t0\nchr2:172936693-172938111\t428\t528\tmy_read/2\t60\t-\t428\t528\t255,0,0\t1\t100\t0\n" > "$TMPDIR/example.bed12" +# Create and populate example.gff file +printf "##gff-version 3\n" > "$TMPDIR/example.gff" +printf "chr1\t.\tgene\t1000\t2000\t.\t+\t.\tID=gene1;Name=Gene1\n" >> "$TMPDIR/example.gff" +printf "chr3\t.\tmRNA\t1000\t2000\t.\t+\t.\tID=transcript1;Parent=gene1\n" >> "$TMPDIR/example.gff" +printf "chr1\t.\texon\t1000\t1200\t.\t+\t.\tID=exon1;Parent=transcript1\n" >> "$TMPDIR/example.gff" +printf "chr2\t.\texon\t1500\t1700\t.\t+\t.\tID=exon2;Parent=transcript1\n" >> "$TMPDIR/example.gff" +printf "chr1\t.\tCDS\t1000\t1200\t.\t+\t0\tID=cds1;Parent=transcript1\n" >> "$TMPDIR/example.gff" +printf "chr1\t.\tCDS\t1500\t1700\t.\t+\t2\tID=cds2;Parent=transcript1\n" >> "$TMPDIR/example.gff" + +# Expected output sam files for each test +cat < "$TMPDIR/expected.sam" +@HD VN:1.0 SO:unsorted +@PG ID:BEDTools_bedToBam VN:Vv2.30.0 +@PG ID:samtools PN:samtools PP:BEDTools_bedToBam VN:1.16.1 CL:samtools view -h output.bam +@SQ SN:chr1 AS:../genome.txt LN:248956422 +@SQ SN:chr3 AS:../genome.txt LN:242193529 +@SQ SN:chr2 AS:../genome.txt LN:198295559 +my_read/1 0 chr1 129 255 100M * 0 0 * * +my_read/2 16 chr1 429 255 100M * 0 0 * * +EOF +cat < "$TMPDIR/expected12.sam" +@HD VN:1.0 SO:unsorted +@PG ID:BEDTools_bedToBam VN:Vv2.30.0 +@PG ID:samtools PN:samtools PP:BEDTools_bedToBam VN:1.16.1 CL:samtools view -h output.bam +@SQ SN:chr1 AS:../genome.txt LN:248956422 +@SQ SN:chr3 AS:../genome.txt LN:242193529 +@SQ SN:chr2 AS:../genome.txt LN:198295559 +my_read/1 0 chr1 129 255 100M * 0 0 * * +my_read/2 16 chr1 429 255 100M * 0 0 * * +EOF +cat < "$TMPDIR/expected_mapquality.sam" +@HD VN:1.0 SO:unsorted +@PG ID:BEDTools_bedToBam VN:Vv2.30.0 +@PG ID:samtools PN:samtools PP:BEDTools_bedToBam VN:1.16.1 CL:samtools view -h output.bam +@SQ SN:chr1 AS:../genome.txt LN:248956422 +@SQ SN:chr3 AS:../genome.txt LN:242193529 +@SQ SN:chr2 AS:../genome.txt LN:198295559 +my_read/1 0 chr1 129 10 100M * 0 0 * * +my_read/2 16 chr1 429 10 100M * 0 0 * * +EOF +cat < "$TMPDIR/expected_gff.sam" +@HD VN:1.0 SO:unsorted +@PG ID:BEDTools_bedToBam VN:Vv2.30.0 +@PG ID:samtools PN:samtools PP:BEDTools_bedToBam VN:1.16.1 CL:samtools view -h output.bam +@SQ SN:chr1 AS:../genome.txt LN:248956422 +@SQ SN:chr3 AS:../genome.txt LN:242193529 +@SQ SN:chr2 AS:../genome.txt LN:198295559 +gene 0 chr1 1000 255 1001M * 0 0 * * +mRNA 0 chr3 1000 255 1001M * 0 0 * * +exon 0 chr1 1000 255 201M * 0 0 * * +exon 0 chr2 1500 255 201M * 0 0 * * +CDS 0 chr1 1000 255 201M * 0 0 * * +CDS 0 chr1 1500 255 201M * 0 0 * * +EOF + +# Test 1: Default conversion BED to BAM +mkdir "$TMPDIR/test1" && pushd "$TMPDIR/test1" > /dev/null + +echo "> Run bedtools_bedtobam on BED file" +"$meta_executable" \ + --input "../example.bed" \ + --genome "../genome.txt" \ + --output "output.bam" + +samtools view -h output.bam > output.sam + +# checks +assert_file_exists "output.bam" +assert_file_not_empty "output.bam" +assert_identical_content "output.sam" "../expected.sam" +echo "- test1 succeeded -" + +popd > /dev/null + +# Test 2: BED12 file +mkdir "$TMPDIR/test2" && pushd "$TMPDIR/test2" > /dev/null + +echo "> Run bedtools_bedtobam on BED12 file" +"$meta_executable" \ + --input "../example.bed12" \ + --genome "../genome.txt" \ + --output "output.bam" \ + --bed12 \ + +samtools view -h output.bam > output.sam + +# checks +assert_file_exists "output.bam" +assert_file_not_empty "output.bam" +assert_identical_content "output.sam" "../expected12.sam" +echo "- test2 succeeded -" + +popd > /dev/null + +# Test 3: Uncompressed BAM file +mkdir "$TMPDIR/test3" && pushd "$TMPDIR/test3" > /dev/null + +echo "> Run bedtools_bedtobam on BED file with uncompressed BAM output" +"$meta_executable" \ + --input "../example.bed" \ + --genome "../genome.txt" \ + --output "output.bam" \ + --uncompress_bam + +# checks +assert_file_exists "output.bam" +assert_file_not_empty "output.bam" +# Cannot assert_identical_content because umcompress option does not work on this version of bedtools. + +echo "- test3 succeeded -" + +popd > /dev/null + +# Test 4: Map quality +mkdir "$TMPDIR/test4" && pushd "$TMPDIR/test4" > /dev/null + +echo "> Run bedtools_bedtobam on BED file with map quality" +"$meta_executable" \ + --input "../example.bed" \ + --genome "../genome.txt" \ + --output "output.bam" \ + --map_quality 10 \ + +samtools view -h output.bam > output.sam + +# checks +assert_file_exists "output.bam" +assert_file_not_empty "output.bam" +assert_identical_content "output.sam" "../expected_mapquality.sam" +echo "- test4 succeeded -" + +popd > /dev/null + +# Test 5: gff to bam conversion +mkdir "$TMPDIR/test5" && pushd "$TMPDIR/test5" > /dev/null + +echo "> Run bedtools_bedtobam on GFF file" +"$meta_executable" \ + --input "../example.gff" \ + --genome "../genome.txt" \ + --output "output.bam" + +samtools view -h output.bam > output.sam + +# checks +assert_file_exists "output.bam" +assert_file_not_empty "output.bam" +assert_identical_content "output.sam" "../expected_gff.sam" +echo "- test5 succeeded -" + +popd > /dev/null + +echo "---- All tests succeeded! ----" +exit 0 diff --git a/src/bedtools/bedtools_intersect/script.sh b/src/bedtools/bedtools_intersect/script.sh index 04a8d854..3a28ba57 100644 --- a/src/bedtools/bedtools_intersect/script.sh +++ b/src/bedtools/bedtools_intersect/script.sh @@ -24,6 +24,7 @@ unset_if_false=( par_sortout par_bed par_no_buffer_output + par_header ) for par in ${unset_if_false[@]}; do