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sbol-vo.rdf
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sbol-vo.rdf
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<?xml version="1.0"?>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xml:base="http://sbols.org/visual/v2"
xmlns="http://sbols.org/visual/v2#">
<owl:Ontology rdf:about="http://sbols.org/visual/v2">
<owl:imports rdf:resource="https://dissys.github.io/sbol-owl/sbol.rdf"/>
</owl:Ontology>
<owl:ObjectProperty rdf:about="#isGlyphOf">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">isGlyphOf</rdfs:label>
</owl:ObjectProperty>
<owl:ObjectProperty rdf:about="#hasGlyph">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hasGlyph</rdfs:label>
</owl:ObjectProperty>
<owl:ObjectProperty rdf:about="#hasHead">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hasHead</rdfs:label>
</owl:ObjectProperty>
<owl:ObjectProperty rdf:about="#hasTail">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hasTail</rdfs:label>
</owl:ObjectProperty>
<owl:ObjectProperty rdf:about="#hasIncoming">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hasIncoming</rdfs:label>
</owl:ObjectProperty>
<owl:ObjectProperty rdf:about="#hasOutgoing">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hasOutgoing</rdfs:label>
</owl:ObjectProperty>
<owl:ObjectProperty rdf:about="#isAlternativeOf">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">isAlternativeOf</rdfs:label>
</owl:ObjectProperty>
<owl:AnnotationProperty rdf:about="#defaultGlyph">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">defaultGlyph</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="#glyphDirectory">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">glyphDirectory</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="#recommended">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">recommended</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="#prototypicalExample">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">prototypicalExample</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="#notes">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">notes</rdfs:label>
</owl:AnnotationProperty>
<owl:Class rdf:about="#Glyph">
<rdfs:subClassOf rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Glyph</rdfs:label>
</owl:Class>
<owl:Class rdf:about="#InteractionGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">InteractionGlyph</rdfs:label>
</owl:Class>
<owl:Class rdf:about="#InteractionNodeGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">InteractionNodeGlyph</rdfs:label>
</owl:Class>
<owl:Class rdf:about="#MolecularSpeciesGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">MolecularSpeciesGlyph</rdfs:label>
</owl:Class>
<owl:Class rdf:about="#SequenceFeatureGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SequenceFeatureGlyph</rdfs:label>
</owl:Class>
<owl:Class rdf:about="#InhibitionGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasHead"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000642"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasTail"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000020"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000169"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An arrow whose head is a bar, suggesting blocking:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">InhibitionGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">inhibition-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/Interactions/inhibition</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Repression of pTAL14 promoter by TAL14</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">*This section left intentionally blank*</notes>
</owl:Class>
<owl:Class rdf:about="#DegradationGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasTail"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000010"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000179"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Identical to the Process glyph, but with an empty set at the sink of the arrowhead:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DegradationGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">degradation-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/Interactions/degradation</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Cellular recycling of mRNA</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">*This section left intentionally blank*</notes>
</owl:Class>
<owl:Class rdf:about="#StimulationGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasHead"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000643"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasTail"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000459"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000170"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An arrow with an head that is empty or of a different color than the line:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">StimulationGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">stimulation-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/Interactions/stimulation</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Activation of pTAL14 promoter by Gal4VP16 activator</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">*This section left intentionally blank*</notes>
</owl:Class>
<owl:Class rdf:about="#ControlGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasHead"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000644"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasTail"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000019"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000168"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An arrow with a diamond head:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">ControlGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">control-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/Interactions/control</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Inversion of a sequence flanked by FRT sites by FLP recombinase</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">*This section left intentionally blank*</notes>
</owl:Class>
<owl:Class rdf:about="#ProcessGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasHead"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000011"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasTail"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000010"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasTail"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000645"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000375"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An arrow with a filled head the same color as the line:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">ProcessGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">process-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/Interactions/process</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Production of Green Fluorescent Protein (GFP) from the gfp Coding Sequence</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The assocated SBO term also covers:
- SBO:0000176 Biochemical Reaction
- SBO:0000589 Genetic Production (source is DNAcomponent, sink is usually RNA or Macromolecule)
- SBO:0000177 Non-covalent Binding (sink is a Complex)</notes>
</owl:Class>
<owl:Class rdf:about="#StabilityElementGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf rdf:resource="#SequenceFeatureGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001979"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001955"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001546"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Stability Element is a "stem-top" glyph for describing small sites. In this system:
- the top glyph indicates the type of site (e.g., Stability Element)
- the stem glyph indicates whether the site affects DNA, RNA, or protein (respectively: straight, wavy, or looped)</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">StabilityElementGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">stem-top-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/stability-element</glyphDirectory>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PEST tag, 3’ Hairpin</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">RNA Stability Element glyph was previously also associated with SO:0001957, but that SO term has been declared obsolete in Sequence Ontology.
This glyph is not backwards compatible with SBOL Visual 1.0.
Despite both being stem-top glyphs, Biopolymer Location is not a parent to Stability Element, since the length of a Stability Element is typically multiple bases / amino acids.</notes>
</owl:Class>
<owl:Class rdf:about="#DnaStabilityElementGlyph">
<rdfs:subClassOf rdf:resource="#StabilityElementGlyph"/>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The top for a Stability Element is a pentagon suggesting the shape of a shield, on top of a stem connecting to the backbone at the point where the stability element is located (in order: DNA, RNA, Protein):</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DnaStabilityElementGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">dna-stability-element-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/stability-element</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
</owl:Class>
<owl:Class rdf:about="#RnaStabilityElementGlyph">
<rdfs:subClassOf rdf:resource="#StabilityElementGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001979"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The top for a Stability Element is a pentagon suggesting the shape of a shield, on top of a stem connecting to the backbone at the point where the stability element is located (in order: DNA, RNA, Protein):</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">RnaStabilityElementGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">rna-stability-element-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/stability-element</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
</owl:Class>
<owl:Class rdf:about="#ProteinStabilityElementGlyph">
<rdfs:subClassOf rdf:resource="#StabilityElementGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001955"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001546"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The top for a Stability Element is a pentagon suggesting the shape of a shield, on top of a stem connecting to the backbone at the point where the stability element is located (in order: DNA, RNA, Protein):</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">ProteinStabilityElementGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">protein-stability-element-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/stability-element</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
</owl:Class>
<owl:Class rdf:about="#RibosomeEntrySiteGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf rdf:resource="#SequenceFeatureGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0000139"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The ribosome entry promoter glyph is a half-ovoid sitting on the backbone, suggesting an attached ribosome beginning transcription:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">RibosomeEntrySiteGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">ribosome-entry-site-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/ribosome-entry-site</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">T7g10 ribosome binding site</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">*this section deliberately blank*</notes>
</owl:Class>
<owl:Class rdf:about="#AptamerGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf rdf:resource="#SequenceFeatureGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0000031"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The aptamer glyph is a cartoon diagram of a prototypical nucleic acid secondary structure for an aptamer:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">AptamerGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">aptamer-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/aptamer</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">theophylline aptamer</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">*this section deliberately blank*</notes>
</owl:Class>
<owl:Class rdf:about="#ChromosomalLocusGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf rdf:resource="#SequenceFeatureGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0000830"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">
The glyph to indicate integration into a chromosome is an S-shaped curve of the backbone, suggesting something that might be part of a larger looping structure:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">ChromosomalLocusGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">chromosomal-locus-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/chromosomal-locus</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">_B. subtilis_ amyE locus</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Complementary "left" and "right" versions of this glyph SHOULD be used together, flanking the region whose genomic context is being described.
The Omitted Detail glyph SHOULD generally be contatenated to indicate that there is information about the chromosome not being represented.
Examples of RECOMMENDED usage:
- A functional unit consisting of promoter, ribosome entry site, CDS, and terminator, all integrated together into the chromosome:
- Two functional units, one integrated into the amyE locus, another integrated into the ganA locus:
</notes>
</owl:Class>
<owl:Class rdf:about="#SignatureGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf rdf:resource="#SequenceFeatureGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001978"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The signature glyph is a box sitting atop the backbone with an X and line inside it, suggesting a signature on a form:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SignatureGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">signature-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/signature</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DNA Barcode</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">*this section deliberately blank*</notes>
</owl:Class>
<owl:Class rdf:about="#PolyASiteGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf rdf:resource="#SequenceFeatureGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0000553"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The polyA site glyph is a sequence of As sitting atop the backbone:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PolyASiteGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">polyA-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/polyA</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">polyA tail on mammalian coding sequence</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">*This section left deliberately blank*</notes>
</owl:Class>
<owl:Class rdf:about="#AssociationGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasIncoming"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000010"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasOutgoing"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000011"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionNodeGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000177"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A circular node:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">AssociationGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">association-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/InteractionNodes/association</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Association of gRNA and Cas9 to form an active CRISPR complex.</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The association glyph is based on the SBGN Process Description association glyph.</notes>
</owl:Class>
<owl:Class rdf:about="#UnspecifiedNodeGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasIncoming"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000003"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionNodeGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000231"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Unspecified is represented by the unicode "replacement character" glyph, indicating a missing or invalid symbol:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">UnspecifiedNodeGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">unspecified-glyph-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/InteractionNodes/unspecified</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An interaction that is missing any information about its nature or intended purpose.</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Note that there are no outgoing edges for the Unspecified interaction, because there is no difference in roles to indicate.
The Unspecified glyph is intended for showing where information about an interaction is missing. It should not generally appear with well-curated designs or diagrams.</notes>
</owl:Class>
<owl:Class rdf:about="#DissociationGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasIncoming"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000010"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasOutgoing"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000011"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionNodeGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000180"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An circular node inside another circle</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DissociationGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">dissociation-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/InteractionNodes/dissociation</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Dissociation of an active CRISPR complex into gRNA and Cas9.</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The dissociation glyph is based on the SBGN Process Description dissociation glyph.</notes>
</owl:Class>
<owl:Class rdf:about="#ProcessNodeGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasIncoming"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000010"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#hasOutgoing"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000011"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf rdf:resource="#InteractionNodeGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#Interaction"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#type"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/sbo/SBO:0000375"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A square node:</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">ProcessNodeGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">process-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/InteractionNodes/process</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Association of gRNA and Cas9 to form an active CRISPR complex.</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The process glyph is based on the SBGN Process Description process glyph.
The assocated SBO term also covers:
- SBO:0000176 Biochemical Reaction
- SBO:0000177 Non-covalent Binding (sink is a Complex)</notes>
</owl:Class>
<owl:Class rdf:about="#BiopolymerLocationGlyph">
<rdfs:subClassOf rdf:resource="#Glyph"/>
<rdfs:subClassOf rdf:resource="#SequenceFeatureGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0000699"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001236"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001237"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">
Biopolymer Location is a "stem-top" glyph for describing small sites. In this system:
- the top glyph indicates the type of site (e.g., Biopolymer Location)
- the stem glyph indicates whether the site affects DNA, RNA, or protein (respectively: straight, wavy, or looped)</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">BiopolymerLocationGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">stem-top-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/location</glyphDirectory>
<prototypicalExample rdf:datatype="http://www.w3.org/2001/XMLSchema#string">CRISPR-targeted insertion site, protease site, mutation site</prototypicalExample>
<notes rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Biopolymer Location is a general glyph for all zero- and one-length sequence features, including insertion and deletion sites and X-ase cut sites.
Note also that Biopolymer Location does not cover stability elements, since their length is typically multiple bases / amino acids.
Describing a Restriction Enzyme Cleavage Site with a vertical line glyph on a DNA backbone (as done previously in SBOL Visual 1.0 via the Restriction Enzyme Recognition Site glyph) can persist in a SBOL Visual 2 diagram and still be considered compliant with SBOL Visual 2, where it is now classified as a Biopolymer Location (which is a superclass of cleavage sites). Thus, the Biopolymer Location glyph from SBOL Visual 2.0 is backwards compatible with the Restriction Enzyme Recognition Site glyph from SBOL Visual 1.0.</notes>
</owl:Class>
<owl:Class rdf:about="#DnaBiopolymerLocationGlyph">
<rdfs:subClassOf rdf:resource="#BiopolymerLocationGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0000699"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001236"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The RECOMMENDED top for Biopolymer Location is a circle, reminiscent of a pin stuck into a location (in order: DNA, RNA, Protein):</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DnaBiopolymerLocationGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">location-dna-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/location</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
</owl:Class>
<owl:Class rdf:about="#RnaBiopolymerLocationGlyph">
<rdfs:subClassOf rdf:resource="#BiopolymerLocationGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0000699"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001236"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The RECOMMENDED top for Biopolymer Location is a circle, reminiscent of a pin stuck into a location (in order: DNA, RNA, Protein):</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">RnaBiopolymerLocationGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">location-rna-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/location</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
</owl:Class>
<owl:Class rdf:about="#ProteinBiopolymerLocationGlyph">
<rdfs:subClassOf rdf:resource="#BiopolymerLocationGlyph"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom rdf:resource="http://sbols.org/v2#ComponentDefinition"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0000699"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="#isGlyphOf"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://sbols.org/v2#role"/>
<owl:someValuesFrom rdf:resource="http://identifiers.org/so/SO:0001237"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The RECOMMENDED top for Biopolymer Location is a circle, reminiscent of a pin stuck into a location (in order: DNA, RNA, Protein):</rdfs:comment>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">ProteinBiopolymerLocationGlyph</rdfs:label>
<defaultGlyph rdf:datatype="http://www.w3.org/2001/XMLSchema#string">location-protein-specification.png</defaultGlyph>
<glyphDirectory rdf:datatype="http://www.w3.org/2001/XMLSchema#string">SBOL-visual/Glyphs/location</glyphDirectory>
<recommended rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</recommended>
</owl:Class>