source: trunk/bio/sources/flymine/redfly/test/resources/RedFlyGFF3RecordHandlerTest.xml @ 22539

<items>
<item id="5_3" class="SOTerm">
<attribute name="name" value="gene"/>
<reference name="ontology" ref_id="3_1"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="4_2" class="Chromosome">
<attribute name="primaryIdentifier" value="3R"/>
<reference name="organism" ref_id="0_1"/>
<reference name="sequenceOntologyTerm" ref_id="5_1"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="8_1" class="AnatomyTerm">
<attribute name="identifier" value="FBbt:00005304"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="4_1" class="Chromosome">
<attribute name="primaryIdentifier" value="2L"/>
<reference name="organism" ref_id="0_1"/>
<reference name="sequenceOntologyTerm" ref_id="5_1"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="10_2" class="Publication">
<attribute name="pubMedId" value="7713432"/>
</item>
<item id="6_2" class="CRM">
<attribute name="curated" value="true"/>
<attribute name="evidenceMethod" value="reporter construct (in vivo)"/>
<attribute name="length" value="602"/>
<attribute name="primaryIdentifier" value="prd_P1_enhancer"/>
<attribute name="secondaryIdentifier" value="392"/>
<reference name="chromosome" ref_id="4_1"/>
<reference name="chromosomeLocation" ref_id="7_2"/>
<reference name="gene" ref_id="9_1"/>
<reference name="organism" ref_id="0_1"/>
<reference name="sequenceOntologyTerm" ref_id="5_2"/>
<collection name="anatomyOntology"><reference ref_id="8_1"/><reference ref_id="8_4"/></collection>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
<collection name="publications"><reference ref_id="10_1"/></collection>
</item>
<item id="3_1" class="Ontology">
<attribute name="name" value="Sequence Ontology"/>
<attribute name="url" value="http://www.sequenceontology.org"/>
</item>
<item id="7_2" class="Location">
<attribute name="end" value="12088492"/>
<attribute name="start" value="12087891"/>
<attribute name="strand" value="0"/>
<reference name="feature" ref_id="6_2"/>
<reference name="locatedOn" ref_id="4_1"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="10_1" class="Publication">
<attribute name="pubMedId" value="7873402"/>
</item>
<item id="6_1" class="CRM">
<attribute name="curated" value="true"/>
<attribute name="evidenceMethod" value="reporter construct (in vivo)"/>
<attribute name="length" value="3102"/>
<attribute name="primaryIdentifier" value="prd_A8_repressor"/>
<attribute name="secondaryIdentifier" value="391"/>
<reference name="chromosome" ref_id="4_1"/>
<reference name="chromosomeLocation" ref_id="7_1"/>
<reference name="gene" ref_id="9_1"/>
<reference name="organism" ref_id="0_1"/>
<reference name="sequenceOntologyTerm" ref_id="5_2"/>
<collection name="anatomyOntology"><reference ref_id="8_1"/><reference ref_id="8_2"/><reference ref_id="8_3"/></collection>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
<collection name="publications"><reference ref_id="10_1"/></collection>
</item>
<item id="9_1" class="Gene">
<attribute name="primaryIdentifier" value="FBgn0001"/>
<reference name="organism" ref_id="0_1"/>
<reference name="sequenceOntologyTerm" ref_id="5_3"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="8_3" class="AnatomyTerm">
<attribute name="identifier" value="FBbt:00005414"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="6_3" class="CRM">
<attribute name="curated" value="true"/>
<attribute name="evidenceMethod" value="reporter construct (in vivo)"/>
<attribute name="length" value="8589"/>
<attribute name="primaryIdentifier" value="Scr_BSR"/>
<attribute name="secondaryIdentifier" value="576"/>
<reference name="chromosome" ref_id="4_2"/>
<reference name="chromosomeLocation" ref_id="7_3"/>
<reference name="gene" ref_id="9_2"/>
<reference name="organism" ref_id="0_1"/>
<reference name="sequenceOntologyTerm" ref_id="5_2"/>
<collection name="anatomyOntology"><reference ref_id="8_5"/></collection>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
<collection name="publications"><reference ref_id="10_2"/></collection>
</item>
<item id="7_3" class="Location">
<attribute name="end" value="2676484"/>
<attribute name="start" value="2667896"/>
<attribute name="strand" value="0"/>
<reference name="feature" ref_id="6_3"/>
<reference name="locatedOn" ref_id="4_2"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="7_1" class="Location">
<attribute name="end" value="12095792"/>
<attribute name="start" value="12092691"/>
<attribute name="strand" value="0"/>
<reference name="feature" ref_id="6_1"/>
<reference name="locatedOn" ref_id="4_1"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="8_4" class="AnatomyTerm">
<attribute name="identifier" value="FBbt:00000111"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="9_2" class="Gene">
<attribute name="primaryIdentifier" value="FBgn0002"/>
<reference name="organism" ref_id="0_1"/>
<reference name="sequenceOntologyTerm" ref_id="5_3"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="2_1" class="DataSet">
<attribute name="name" value="FlyReg data set"/>
<reference name="dataSource" ref_id="1_1"/>
</item>
<item id="5_2" class="SOTerm">
<attribute name="name" value="CRM"/>
<reference name="ontology" ref_id="3_1"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="8_5" class="AnatomyTerm">
<attribute name="identifier" value="FBbt:00000090"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="1_1" class="DataSource">
<attribute name="name" value="FlyReg"/>
</item>
<item id="8_2" class="AnatomyTerm">
<attribute name="identifier" value="FBbt:00005427"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
<item id="0_1" class="Organism">
<attribute name="taxonId" value="DM"/>
</item>
<item id="5_1" class="SOTerm">
<attribute name="name" value="chromosome"/>
<reference name="ontology" ref_id="3_1"/>
<collection name="dataSets"><reference ref_id="2_1"/></collection>
</item>
</items>