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<!-- saved from url=(0133)http://localhost:8080/lode/extract?url=https://raw.githubusercontent.com/dissys/sbol-owl/feature/rdfs_inferencing/sbol.rdf?a=1#d4e172 -->
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
<link href="./sbol-owl_files/owl.css" rel="stylesheet" type="text/css">
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<script>
$(document).ready(
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if (list.size() != 0) {
var element = list.first();
$.scrollTo(element);
}
});
</script>
</head>
<body>
<div class="head">
<dl>
<dt>
IRI:
</dt>
<dd>
http://sbols.org/v2
</dd>
</dl>
<dl>
<dt>
Current version:
</dt>
<dd>
1.0
</dd>
</dl>
</div>
<hr>
<h2>Abstract</h2>
<p>The OWL version of the SBOL data model</p>
<div id="toc">
<h2>Table of Content</h2>
<ol>
<li><a href="#classes">Classes</a></li>
<li><a href="#objectproperties">Object Properties</a></li>
<li><a href="#dataproperties">Data Properties</a></li>
<li><a href="#namedindividuals">Named Individuals</a></li>
<li><a href="#generalaxioms">General Axioms</a></li>
<li><a href="#namespacedeclarations">Namespace Declarations</a></li>
</ol>
</div>
<div id="classes">
<h2>Classes</h2>
<ul class="hlist">
<li><a href="#Access" title="http://sbols.org/v2#Access">Access</a></li>
<li><a href="#Attachment" title="http://sbols.org/v2#Attachment">Attachment</a></li>
<li><a href="#CDS" title="http://sbols.org/v2#CDS">CDS</a></li>
<li><a href="#Collection" title="http://sbols.org/v2#Collection">Collection</a></li>
<li><a href="#CombinatorialDerivation" title="http://sbols.org/v2#CombinatorialDerivation">CombinatorialDerivation</a></li>
<li><a href="#CombinatorialDerivationStrategy" title="http://sbols.org/v2#CombinatorialDerivationStrategy">CombinatorialDerivationStrategy</a></li>
<li><a href="#Complex" title="http://sbols.org/v2#Complex">Complex</a></li>
<li><a href="#Component" title="http://sbols.org/v2#Component">Component</a></li>
<li><a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a></li>
<li><a href="#ComponentInstance" title="http://sbols.org/v2#ComponentInstance">ComponentInstance</a></li>
<li><a href="#Cut" title="http://sbols.org/v2#Cut">Cut</a></li>
<li><a href="#differentFrom" title="http://sbols.org/v2#differentFrom">differentFrom</a></li>
<li><a href="#Direction" title="http://sbols.org/v2#Direction">Direction</a></li>
<li><a href="#DNA" title="http://sbols.org/v2#DNA">DNA</a></li>
<li><a href="#Effector" title="http://sbols.org/v2#Effector">Effector</a></li>
<li><a href="#EngineeredGene" title="http://sbols.org/v2#EngineeredGene">EngineeredGene</a></li>
<li><a href="#enumerate" title="http://sbols.org/v2#enumerate"><span>enumerate</span></a></li>
<li><a href="#FunctionalComponent" title="http://sbols.org/v2#FunctionalComponent">FunctionalComponent</a></li>
<li><a href="#Gene" title="http://sbols.org/v2#Gene">Gene</a></li>
<li><a href="#GenericLocation" title="http://sbols.org/v2#GenericLocation">GenericLocation</a></li>
<li><a href="#GenericTopLevel" title="http://sbols.org/v2#GenericTopLevel">GenericTopLevel</a></li>
<li><a href="#Identified" title="http://sbols.org/v2#Identified">Identified</a></li>
<li><a href="#Implementation" title="http://sbols.org/v2#Implementation">Implementation</a></li>
<li><a href="#in" title="http://sbols.org/v2#in"><span>in</span></a></li>
<li><a href="#inline" title="http://sbols.org/v2#inline"><span>inline</span></a></li>
<li><a href="#inout" title="http://sbols.org/v2#inout"><span>inout</span></a></li>
<li><a href="#Interaction" title="http://sbols.org/v2#Interaction">Interaction</a></li>
<li><a href="#Location" title="http://sbols.org/v2#Location">Location</a></li>
<li><a href="#MapsTo" title="http://sbols.org/v2#MapsTo">MapsTo</a></li>
<li><a href="#merge" title="http://sbols.org/v2#merge"><span>merge</span></a></li>
<li><a href="#mergeRoles" title="http://sbols.org/v2#mergeRoles">mergeRoles</a></li>
<li><a href="#Model" title="http://sbols.org/v2#Model">Model</a></li>
<li><a href="#Module" title="http://sbols.org/v2#Module">Module</a></li>
<li><a href="#ModuleDefinition" title="http://sbols.org/v2#ModuleDefinition">ModuleDefinition</a></li>
<li><a href="#mRNA" title="http://sbols.org/v2#mRNA">mRNA</a></li>
<li><a href="#NASequence" title="http://sbols.org/v2#NASequence">NASequence</a></li>
<li><a href="#none" title="http://sbols.org/v2#none"><span>none</span></a></li>
<li><a href="#one" title="http://sbols.org/v2#one"><span>one</span></a></li>
<li><a href="#oneOrMore" title="http://sbols.org/v2#oneOrMore"><span>oneOrMore</span></a></li>
<li><a href="#Operator" title="http://sbols.org/v2#Operator">Operator</a></li>
<li><a href="#oppositeOrientationAs" title="http://sbols.org/v2#oppositeOrientationAs">oppositeOrientationAs</a></li>
<li><a href="#Orientation" title="http://sbols.org/v2#Orientation">Orientation</a></li>
<li><a href="#out" title="http://sbols.org/v2#out"><span>out</span></a></li>
<li><a href="#overrideRoles" title="http://sbols.org/v2#overrideRoles">overrideRoles</a></li>
<li><a href="#Participation" title="http://sbols.org/v2#Participation">Participation</a></li>
<li><a href="#precedes" title="http://sbols.org/v2#precedes">precedes</a></li>
<li><a href="#private" title="http://sbols.org/v2#private"><span>private</span></a></li>
<li><a href="#Promoter" title="http://sbols.org/v2#Promoter">Promoter</a></li>
<li><a href="#Protein" title="http://sbols.org/v2#Protein">Protein</a></li>
<li><a href="#ProteinSequence" title="http://sbols.org/v2#ProteinSequence">ProteinSequence</a></li>
<li><a href="#public" title="http://sbols.org/v2#public"><span>public</span></a></li>
<li><a href="#Range" title="http://sbols.org/v2#Range">Range</a></li>
<li><a href="#RBS" title="http://sbols.org/v2#RBS">RBS</a></li>
<li><a href="#Refinement" title="http://sbols.org/v2#Refinement">Refinement</a></li>
<li><a href="#Restriction" title="http://sbols.org/v2#Restriction">Restriction</a></li>
<li><a href="#reverseComplement" title="http://sbols.org/v2#reverseComplement"><span>reverseComplement</span></a></li>
<li><a href="#RNA" title="http://sbols.org/v2#RNA">RNA</a></li>
<li><a href="#RoleIntegration" title="http://sbols.org/v2#RoleIntegration">RoleIntegration</a></li>
<li><a href="#sameOrientationAs" title="http://sbols.org/v2#sameOrientationAs">sameOrientationAs</a></li>
<li><a href="#sample" title="http://sbols.org/v2#sample"><span>sample</span></a></li>
<li><a href="#SBOLVocabulary" title="http://sbols.org/v2#SBOLVocabulary">SBOLVocabulary</a></li>
<li><a href="#Sequence" title="http://sbols.org/v2#Sequence">Sequence</a></li>
<li><a href="#SequenceAnnotation" title="http://sbols.org/v2#SequenceAnnotation">SequenceAnnotation</a></li>
<li><a href="#SequenceConstraint" title="http://sbols.org/v2#SequenceConstraint">SequenceConstraint</a></li>
<li><a href="#SmallMolecule" title="http://sbols.org/v2#SmallMolecule">SmallMolecule</a></li>
<li><a href="#SMILES" title="http://sbols.org/v2#SMILES">SMILES</a></li>
<li><a href="#Terminator" title="http://sbols.org/v2#Terminator">Terminator</a></li>
<li><a href="#TopLevel" title="http://sbols.org/v2#TopLevel">TopLevel</a></li>
<li><a href="#useLocal" title="http://sbols.org/v2#useLocal"><span>useLocal</span></a></li>
<li><a href="#useRemote" title="http://sbols.org/v2#useRemote"><span>useRemote</span></a></li>
<li><a href="#VariableComponent" title="http://sbols.org/v2#VariableComponent">VariableComponent</a></li>
<li><a href="#VariableOperator" title="http://sbols.org/v2#VariableOperator">VariableOperator</a></li>
<li><a href="#verifyIdentical" title="http://sbols.org/v2#verifyIdentical"><span>verifyIdentical</span></a></li>
<li><a href="#zeroOrMore" title="http://sbols.org/v2#zeroOrMore"><span>zeroOrMore</span></a></li>
<li><a href="#zeroOrOne" title="http://sbols.org/v2#zeroOrOne"><span>zeroOrOne</span></a></li>
</ul>
<div id="Access" class="entity">
<a name="http://sbols.org/v2#Access"></a>
<h3>Access<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#Access</p>
<div class="comment">
<p>Not represented in SBOL directly. It is used in the OWL representation to enforce choosing an access type using one of its subclasses.</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#private" title="http://sbols.org/v2#private">private</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#public" title="http://sbols.org/v2#public">public</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#SBOLVocabulary" title="http://sbols.org/v2#SBOLVocabulary">SBOLVocabulary</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has sub-classes
</dt>
<dd>
<a href="#private" title="http://sbols.org/v2#private">private</a>
<sup title="class" class="type-c">c</sup>,
<a href="#public" title="http://sbols.org/v2#public">public</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in range of
</dt>
<dd>
<a href="#access" title="http://sbols.org/v2#access">access</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#CombinatorialDerivationStrategy" title="http://sbols.org/v2#CombinatorialDerivationStrategy">CombinatorialDerivationStrategy</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Direction" title="http://sbols.org/v2#Direction">Direction</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Orientation" title="http://sbols.org/v2#Orientation">Orientation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Refinement" title="http://sbols.org/v2#Refinement">Refinement</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Restriction" title="http://sbols.org/v2#Restriction">Restriction</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RoleIntegration" title="http://sbols.org/v2#RoleIntegration">RoleIntegration</a>
<sup title="class" class="type-c">c</sup>,
<a href="#VariableOperator" title="http://sbols.org/v2#VariableOperator">VariableOperator</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="Attachment" class="entity">
<a name="http://sbols.org/v2#Attachment"></a>
<h3>Attachment<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#Attachment</p>
<div class="comment">
<p>The purpose of the Attachment class is to serve as a general container for data files, especially experimental data files. It provides a means for linking files and metadata to SBOL designs.</p>
</div>
<dl class="description">
<dt>
has super-classes
</dt>
<dd>
<a href="#TopLevel" title="http://sbols.org/v2#TopLevel">TopLevel</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in domain of
</dt>
<dd>
<a href="#format" title="http://sbols.org/v2#format">format</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#hash" title="http://sbols.org/v2#hash">hash</a>
<sup title="data property" class="type-dp">dp</sup>,
<a href="#size" title="http://sbols.org/v2#size">size</a>
<sup title="data property" class="type-dp">dp</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#Collection" title="http://sbols.org/v2#Collection">Collection</a>
<sup title="class" class="type-c">c</sup>,
<a href="#CombinatorialDerivation" title="http://sbols.org/v2#CombinatorialDerivation">CombinatorialDerivation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>,
<a href="#GenericTopLevel" title="http://sbols.org/v2#GenericTopLevel">GenericTopLevel</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Implementation" title="http://sbols.org/v2#Implementation">Implementation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Model" title="http://sbols.org/v2#Model">Model</a>
<sup title="class" class="type-c">c</sup>,
<a href="#ModuleDefinition" title="http://sbols.org/v2#ModuleDefinition">ModuleDefinition</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Sequence" title="http://sbols.org/v2#Sequence">Sequence</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="CDS" class="entity">
<a name="http://sbols.org/v2#CDS"></a>
<h3>CDS<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#CDS</p>
<div class="comment">
<p>CDS DNA component</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#role" title="http://sbols.org/v2#role">role</a>
<sup title="object property" class="type-op">op</sup>
<span class="logic">some</span>
<span class="dotted" title="http://identifiers.org/so/SO:0000316">s o:0000316</span>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#DNA" title="http://sbols.org/v2#DNA">DNA</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#EngineeredGene" title="http://sbols.org/v2#EngineeredGene">EngineeredGene</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Gene" title="http://sbols.org/v2#Gene">Gene</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Operator" title="http://sbols.org/v2#Operator">Operator</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Promoter" title="http://sbols.org/v2#Promoter">Promoter</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RBS" title="http://sbols.org/v2#RBS">RBS</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Terminator" title="http://sbols.org/v2#Terminator">Terminator</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="Collection" class="entity">
<a name="http://sbols.org/v2#Collection"></a>
<h3>Collection<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#Collection</p>
<div class="comment">
<p>Groups together a set of TopLevel objects that have something in common.</p>
</div>
<dl class="description">
<dt>
has super-classes
</dt>
<dd>
<a href="#TopLevel" title="http://sbols.org/v2#TopLevel">TopLevel</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in domain of
</dt>
<dd>
<a href="#member" title="http://sbols.org/v2#member">member</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is in range of
</dt>
<dd>
<a href="#variantCollection" title="http://sbols.org/v2#variantCollection">variantCollection</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#Attachment" title="http://sbols.org/v2#Attachment">Attachment</a>
<sup title="class" class="type-c">c</sup>,
<a href="#CombinatorialDerivation" title="http://sbols.org/v2#CombinatorialDerivation">CombinatorialDerivation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>,
<a href="#GenericTopLevel" title="http://sbols.org/v2#GenericTopLevel">GenericTopLevel</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Implementation" title="http://sbols.org/v2#Implementation">Implementation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Model" title="http://sbols.org/v2#Model">Model</a>
<sup title="class" class="type-c">c</sup>,
<a href="#ModuleDefinition" title="http://sbols.org/v2#ModuleDefinition">ModuleDefinition</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Sequence" title="http://sbols.org/v2#Sequence">Sequence</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="CombinatorialDerivation" class="entity">
<a name="http://sbols.org/v2#CombinatorialDerivation"></a>
<h3>CombinatorialDerivation<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#CombinatorialDerivation</p>
<div class="comment">
<p>The purpose of the CombinatorialDerivation class is to specify combinatorial genetic designs without having to specify every possible design variant. For example, a CombinatorialDerivation can be used to specify a library of reporter gene variants that include different promoters and RBSs without having to specify a ComponentDefinition for every possible combination of promoter, RBS, and CDS in the library. ComponentDefinition objects that realize a CombinatorialDerivation can be derived in accordance with the class properties template, variableComponents, and strategy.</p>
</div>
<dl class="description">
<dt>
has super-classes
</dt>
<dd>
<a href="#TopLevel" title="http://sbols.org/v2#TopLevel">TopLevel</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dd>
<a href="#template" title="http://sbols.org/v2#template">template</a>
<sup title="object property" class="type-op">op</sup>
<span class="logic">some</span>
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in domain of
</dt>
<dd>
<a href="#strategy" title="http://sbols.org/v2#strategy">strategy</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#template" title="http://sbols.org/v2#template">template</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#variableComponent" title="http://sbols.org/v2#variableComponent">variableComponent</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is in range of
</dt>
<dd>
<a href="#variantDerivation" title="http://sbols.org/v2#variantDerivation">variantDerivation</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#Attachment" title="http://sbols.org/v2#Attachment">Attachment</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Collection" title="http://sbols.org/v2#Collection">Collection</a>
<sup title="class" class="type-c">c</sup>,
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>,
<a href="#GenericTopLevel" title="http://sbols.org/v2#GenericTopLevel">GenericTopLevel</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Implementation" title="http://sbols.org/v2#Implementation">Implementation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Model" title="http://sbols.org/v2#Model">Model</a>
<sup title="class" class="type-c">c</sup>,
<a href="#ModuleDefinition" title="http://sbols.org/v2#ModuleDefinition">ModuleDefinition</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Sequence" title="http://sbols.org/v2#Sequence">Sequence</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="CombinatorialDerivationStrategy" class="entity">
<a name="http://sbols.org/v2#CombinatorialDerivationStrategy"></a>
<h3>CombinatorialDerivationStrategy<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#CombinatorialDerivationStrategy</p>
<div class="comment">
<p>Specifies strategy types for combinatorial derivations.</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#enumerate" title="http://sbols.org/v2#enumerate">enumerate</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#sample" title="http://sbols.org/v2#sample">sample</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#SBOLVocabulary" title="http://sbols.org/v2#SBOLVocabulary">SBOLVocabulary</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has sub-classes
</dt>
<dd>
<a href="#enumerate" title="http://sbols.org/v2#enumerate">enumerate</a>
<sup title="class" class="type-c">c</sup>,
<a href="#sample" title="http://sbols.org/v2#sample">sample</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in range of
</dt>
<dd>
<a href="#strategy" title="http://sbols.org/v2#strategy">strategy</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#Access" title="http://sbols.org/v2#Access">Access</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Direction" title="http://sbols.org/v2#Direction">Direction</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Orientation" title="http://sbols.org/v2#Orientation">Orientation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Refinement" title="http://sbols.org/v2#Refinement">Refinement</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Restriction" title="http://sbols.org/v2#Restriction">Restriction</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RoleIntegration" title="http://sbols.org/v2#RoleIntegration">RoleIntegration</a>
<sup title="class" class="type-c">c</sup>,
<a href="#VariableOperator" title="http://sbols.org/v2#VariableOperator">VariableOperator</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="Complex" class="entity">
<a name="http://sbols.org/v2#Complex"></a>
<h3>Complex<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#Complex</p>
<div class="comment">
<p>Complex component definition</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">and</span> (
<a href="#type" title="http://sbols.org/v2#type">type</a>
<sup title="object property" class="type-op">op</sup>
<span class="logic">some</span>
<span class="dotted" title="http://www.biopax.org/release/biopax-level3.owl#Complex">complex</span>
<sup title="class" class="type-c">c</sup>)
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#DNA" title="http://sbols.org/v2#DNA">DNA</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Protein" title="http://sbols.org/v2#Protein">Protein</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RNA" title="http://sbols.org/v2#RNA">RNA</a>
<sup title="class" class="type-c">c</sup>,
<a href="#SmallMolecule" title="http://sbols.org/v2#SmallMolecule">SmallMolecule</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="Component" class="entity">
<a name="http://sbols.org/v2#Component"></a>
<h3>Component<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#Component</p>
<div class="comment">
<p>The Component class is used to compose ComponentDefinition objects into a structural hierarchy. For example,the ComponentDefinition of a gene could contain four Component objects: a promoter, RBS, CDS, and terminator. In turn, the ComponentDefinition of the promoter Component could contain Component objects defined as various operator sites.</p>
</div>
<dl class="description">
<dt>
has super-classes
</dt>
<dd>
<a href="#ComponentInstance" title="http://sbols.org/v2#ComponentInstance">ComponentInstance</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in domain of
</dt>
<dd>
<a href="#isComponentOf" title="http://sbols.org/v2#isComponentOf">isComponentOf</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#isObjectOf" title="http://sbols.org/v2#isObjectOf">isObjectOf</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#isSubjectOf" title="http://sbols.org/v2#isSubjectOf">isSubjectOf</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#roleIntegration" title="http://sbols.org/v2#roleIntegration">roleIntegration</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is in range of
</dt>
<dd>
<a href="#component" title="http://sbols.org/v2#component">component</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#object" title="http://sbols.org/v2#object">object</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#subject" title="http://sbols.org/v2#subject">subject</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#variable" title="http://sbols.org/v2#variable">variable</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#FunctionalComponent" title="http://sbols.org/v2#FunctionalComponent">FunctionalComponent</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="ComponentDefinition" class="entity">
<a name="http://sbols.org/v2#ComponentDefinition"></a>
<h3>ComponentDefinition<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#ComponentDefinition</p>
<div class="comment">
<p>Can be used to represent biological design components such as DNA, RNA and small molecules.</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#Complex" title="http://sbols.org/v2#Complex">Complex</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#DNA" title="http://sbols.org/v2#DNA">DNA</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#Protein" title="http://sbols.org/v2#Protein">Protein</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#RNA" title="http://sbols.org/v2#RNA">RNA</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#SmallMolecule" title="http://sbols.org/v2#SmallMolecule">SmallMolecule</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#TopLevel" title="http://sbols.org/v2#TopLevel">TopLevel</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has sub-classes
</dt>
<dd>
<a href="#Complex" title="http://sbols.org/v2#Complex">Complex</a>
<sup title="class" class="type-c">c</sup>,
<a href="#DNA" title="http://sbols.org/v2#DNA">DNA</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Protein" title="http://sbols.org/v2#Protein">Protein</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RNA" title="http://sbols.org/v2#RNA">RNA</a>
<sup title="class" class="type-c">c</sup>,
<a href="#SmallMolecule" title="http://sbols.org/v2#SmallMolecule">SmallMolecule</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in domain of
</dt>
<dd>
<a href="#sequence" title="http://sbols.org/v2#sequence">sequence</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#sequenceAnnotation" title="http://sbols.org/v2#sequenceAnnotation">sequenceAnnotation</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#sequenceConstraint" title="http://sbols.org/v2#sequenceConstraint">sequenceConstraint</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is in range of
</dt>
<dd>
<a href="#isSequenceOf" title="http://sbols.org/v2#isSequenceOf">isSequenceOf</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#template" title="http://sbols.org/v2#template">template</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#variant" title="http://sbols.org/v2#variant">variant</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#Attachment" title="http://sbols.org/v2#Attachment">Attachment</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Collection" title="http://sbols.org/v2#Collection">Collection</a>
<sup title="class" class="type-c">c</sup>,
<a href="#CombinatorialDerivation" title="http://sbols.org/v2#CombinatorialDerivation">CombinatorialDerivation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#GenericTopLevel" title="http://sbols.org/v2#GenericTopLevel">GenericTopLevel</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Implementation" title="http://sbols.org/v2#Implementation">Implementation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Model" title="http://sbols.org/v2#Model">Model</a>
<sup title="class" class="type-c">c</sup>,
<a href="#ModuleDefinition" title="http://sbols.org/v2#ModuleDefinition">ModuleDefinition</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Sequence" title="http://sbols.org/v2#Sequence">Sequence</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="ComponentInstance" class="entity">
<a name="http://sbols.org/v2#ComponentInstance"></a>
<h3>ComponentInstance<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#ComponentInstance</p>
<div class="comment">
<p>The ComponentInstance abstract class is inherited by SBOL classes that represent the usage or occurrence of a ComponentDefinition within a larger design (that is, another ComponentDefinition or ModuleDefinition).</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#Component" title="http://sbols.org/v2#Component">Component</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#FunctionalComponent" title="http://sbols.org/v2#FunctionalComponent">FunctionalComponent</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#Identified" title="http://sbols.org/v2#Identified">Identified</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dd>
<a href="#access" title="http://sbols.org/v2#access">access</a>
<sup title="object property" class="type-op">op</sup>
<span class="logic">some</span>
<a href="#Access" title="http://sbols.org/v2#Access">Access</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dd>
<a href="#definition" title="http://sbols.org/v2#definition">definition</a>
<sup title="object property" class="type-op">op</sup>
<span class="logic">some</span>
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has sub-classes
</dt>
<dd>
<a href="#Component" title="http://sbols.org/v2#Component">Component</a>
<sup title="class" class="type-c">c</sup>,
<a href="#FunctionalComponent" title="http://sbols.org/v2#FunctionalComponent">FunctionalComponent</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in domain of
</dt>
<dd>
<a href="#access" title="http://sbols.org/v2#access">access</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is in range of
</dt>
<dd>
<a href="#local" title="http://sbols.org/v2#local">local</a>
<sup title="object property" class="type-op">op</sup>,
<a href="#remote" title="http://sbols.org/v2#remote">remote</a>
<sup title="object property" class="type-op">op</sup>
</dd>
</dl>
</div>
<div id="Cut" class="entity">
<a name="http://sbols.org/v2#Cut"></a>
<h3>Cut<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#Cut</p>
<div class="comment">
<p>The Cut class has been introduced to enable the specification of a region between two discrete positions. This specification is accomplished using the at property, which specifies a discrete position that that corresponds to the index of a character in the elements String of a Sequence.</p>
</div>
<dl class="description">
<dt>
has super-classes
</dt>
<dd>
<a href="#Location" title="http://sbols.org/v2#Location">Location</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in domain of
</dt>
<dd>
<a href="#at" title="http://sbols.org/v2#at">at</a>
<sup title="data property" class="type-dp">dp</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#GenericLocation" title="http://sbols.org/v2#GenericLocation">GenericLocation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Range" title="http://sbols.org/v2#Range">Range</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="differentFrom" class="entity">
<a name="http://sbols.org/v2#differentFrom"></a>
<h3>differentFrom<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#differentFrom</p>
<div class="comment">
<p>The definition property of the subject Component MUST NOT refer to the same ComponentDefinition as that of the object Component.</p>
</div>
<dl class="description">
<dt>
has super-classes
</dt>
<dd>
<a href="#Restriction" title="http://sbols.org/v2#Restriction">Restriction</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#oppositeOrientationAs" title="http://sbols.org/v2#oppositeOrientationAs">oppositeOrientationAs</a>
<sup title="class" class="type-c">c</sup>,
<a href="#precedes" title="http://sbols.org/v2#precedes">precedes</a>
<sup title="class" class="type-c">c</sup>,
<a href="#sameOrientationAs" title="http://sbols.org/v2#sameOrientationAs">sameOrientationAs</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="Direction" class="entity">
<a name="http://sbols.org/v2#Direction"></a>
<h3>Direction<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#Direction</p>
<div class="comment">
<p>Not represented in SBOL directly. It is used in the OWL representation to enforce choosing a direction type using one of its subclasses.</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#in" title="http://sbols.org/v2#in">in</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#inout" title="http://sbols.org/v2#inout">inout</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#none" title="http://sbols.org/v2#none">none</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">or</span>
<a href="#out" title="http://sbols.org/v2#out">out</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#SBOLVocabulary" title="http://sbols.org/v2#SBOLVocabulary">SBOLVocabulary</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has sub-classes
</dt>
<dd>
<a href="#in" title="http://sbols.org/v2#in">in</a>
<sup title="class" class="type-c">c</sup>,
<a href="#inout" title="http://sbols.org/v2#inout">inout</a>
<sup title="class" class="type-c">c</sup>,
<a href="#none" title="http://sbols.org/v2#none">none</a>
<sup title="class" class="type-c">c</sup>,
<a href="#out" title="http://sbols.org/v2#out">out</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is in range of
</dt>
<dd>
<a href="#direction" title="http://sbols.org/v2#direction">direction</a>
<sup title="object property" class="type-op">op</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#Access" title="http://sbols.org/v2#Access">Access</a>
<sup title="class" class="type-c">c</sup>,
<a href="#CombinatorialDerivationStrategy" title="http://sbols.org/v2#CombinatorialDerivationStrategy">CombinatorialDerivationStrategy</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Orientation" title="http://sbols.org/v2#Orientation">Orientation</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Refinement" title="http://sbols.org/v2#Refinement">Refinement</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Restriction" title="http://sbols.org/v2#Restriction">Restriction</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RoleIntegration" title="http://sbols.org/v2#RoleIntegration">RoleIntegration</a>
<sup title="class" class="type-c">c</sup>,
<a href="#VariableOperator" title="http://sbols.org/v2#VariableOperator">VariableOperator</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="DNA" class="entity">
<a name="http://sbols.org/v2#DNA"></a>
<h3>DNA<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#DNA</p>
<div class="comment">
<p>DNA component definition</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>
<span class="logic">and</span> (
<a href="#type" title="http://sbols.org/v2#type">type</a>
<sup title="object property" class="type-op">op</sup>
<span class="logic">some</span>
<span class="dotted" title="http://www.biopax.org/release/biopax-level3.owl#DnaRegion">dna region</span>
<sup title="class" class="type-c">c</sup>)
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#ComponentDefinition" title="http://sbols.org/v2#ComponentDefinition">ComponentDefinition</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has sub-classes
</dt>
<dd>
<a href="#CDS" title="http://sbols.org/v2#CDS">CDS</a>
<sup title="class" class="type-c">c</sup>,
<a href="#EngineeredGene" title="http://sbols.org/v2#EngineeredGene">EngineeredGene</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Gene" title="http://sbols.org/v2#Gene">Gene</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Operator" title="http://sbols.org/v2#Operator">Operator</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Promoter" title="http://sbols.org/v2#Promoter">Promoter</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RBS" title="http://sbols.org/v2#RBS">RBS</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Terminator" title="http://sbols.org/v2#Terminator">Terminator</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#Complex" title="http://sbols.org/v2#Complex">Complex</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Protein" title="http://sbols.org/v2#Protein">Protein</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RNA" title="http://sbols.org/v2#RNA">RNA</a>
<sup title="class" class="type-c">c</sup>,
<a href="#SmallMolecule" title="http://sbols.org/v2#SmallMolecule">SmallMolecule</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="Effector" class="entity">
<a name="http://sbols.org/v2#Effector"></a>
<h3>Effector<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#Effector</p>
<div class="comment">
<p>Effector small molecule</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#role" title="http://sbols.org/v2#role">role</a>
<sup title="object property" class="type-op">op</sup>
<span class="logic">some</span>
<span class="dotted" title="http://identifiers.org/chebi/CHEBI:35224">c h e b i:35224</span>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#SmallMolecule" title="http://sbols.org/v2#SmallMolecule">SmallMolecule</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="EngineeredGene" class="entity">
<a name="http://sbols.org/v2#EngineeredGene"></a>
<h3>EngineeredGene<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#EngineeredGene</p>
<div class="comment">
<p>EngineeredGene DNA component</p>
</div>
<dl class="description">
<dt>
is equivalent to
</dt>
<dd>
<a href="#role" title="http://sbols.org/v2#role">role</a>
<sup title="object property" class="type-op">op</sup>
<span class="logic">some</span>
<span class="dotted" title="http://identifiers.org/so/SO:0000280">s o:0000280</span>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
has super-classes
</dt>
<dd>
<a href="#DNA" title="http://sbols.org/v2#DNA">DNA</a>
<sup title="class" class="type-c">c</sup>
</dd>
<dt>
is disjoint with
</dt>
<dd>
<a href="#CDS" title="http://sbols.org/v2#CDS">CDS</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Gene" title="http://sbols.org/v2#Gene">Gene</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Operator" title="http://sbols.org/v2#Operator">Operator</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Promoter" title="http://sbols.org/v2#Promoter">Promoter</a>
<sup title="class" class="type-c">c</sup>,
<a href="#RBS" title="http://sbols.org/v2#RBS">RBS</a>
<sup title="class" class="type-c">c</sup>,
<a href="#Terminator" title="http://sbols.org/v2#Terminator">Terminator</a>
<sup title="class" class="type-c">c</sup>
</dd>
</dl>
</div>
<div id="enumerate" class="entity">
<a name="http://sbols.org/v2#enumerate"></a>
<h3>enumerate<sup title="class" class="type-c">c</sup><span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#classes">Class ToC</a></span></h3>
<p><strong>IRI:</strong> http://sbols.org/v2#enumerate</p>
<div class="comment">
<p>A user SHOULD derive all possible ComponentDefinition objects specified by the CombinatorialDerivation.</p>
</div>
<dl class="description">
<dt>
has super-classes
</dt>
<dd>