Initial commit of Sushmas rtpjs

svn path=/; revision=411

diff --git a/plant_reactome/rice_reactome_curation/sushma/.gitignore b/plant_reactome/rice_reactome_curation/sushma/.gitignore
deleted file mode 100644 (file)
index e69de29..0000000

diff --git a/plant_reactome/rice_reactome_curation/sushma/Rice-Reactome-GA12.rtpj b/plant_reactome/rice_reactome_curation/sushma/Rice-Reactome-GA12.rtpj
new file mode 100644 (file)
index 0000000..b81f0b7
--- /dev/null
+++ b/plant_reactome/rice_reactome_curation/sushma/Rice-Reactome-GA12.rtpj
@@ -0,0 +1,3188 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<rtpj>
+  <reactome>
+    <SimpleEntity>
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+        <attribute name="text" value="According to Sakamoto et al. (2004), this gene has a premature stop codon in the third exon. Therefore it is considered as a pseudogene. (Imported from Gene GR:0101306). (Sushma Naithani)" />
+        <attribute name="_displayName" value="According to Sakamoto et al. (2004), this gene has a prematu..." />
+      </instance>
+    </Summation>
+    <Compartment>
+      <instance DB_ID="459" displayName="cytoplasm" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="459" />
+        <attribute name="definition" value="All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="258148" />
+        <attribute name="_displayName" value="cytoplasm" />
+        <attribute name="modified" class="InstanceEdit" referTo="160533" />
+        <attribute name="modified" class="InstanceEdit" referTo="162607" />
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+        <attribute name="modified" class="InstanceEdit" referTo="258122" />
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+        <attribute name="modified" class="InstanceEdit" referTo="447572" />
+        <attribute name="modified" class="InstanceEdit" referTo="526073" />
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+        <attribute name="modified" class="InstanceEdit" referTo="615500" />
+        <attribute name="modified" class="InstanceEdit" referTo="797782" />
+        <attribute name="modified" class="InstanceEdit" referTo="937668" />
+        <attribute name="modified" class="InstanceEdit" referTo="1042299" />
+        <attribute name="modified" class="InstanceEdit" referTo="1220942" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301009" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301023" />
+        <attribute name="modified" class="InstanceEdit" referTo="1552540" />
+        <attribute name="modified" class="InstanceEdit" referTo="1996004" />
+        <attribute name="modified" class="InstanceEdit" referTo="2132408" />
+        <attribute name="modified" class="InstanceEdit" referTo="2133145" />
+        <attribute name="modified" class="InstanceEdit" referTo="2266118" />
+        <attribute name="modified" class="InstanceEdit" referTo="2266147" />
+        <attribute name="modified" class="InstanceEdit" referTo="2454362" />
+        <attribute name="modified" class="InstanceEdit" referTo="2455542" />
+        <attribute name="name" value="cytoplasm" />
+        <attribute name="accession" value="0005737" />
+      </instance>
+    </Compartment>
+    <DefinedSet>
+      <instance DB_ID="1121891" displayName="terpene synthase (LOC_OS04G52210.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="terpene synthase (LOC_OS04G52210.1)" />
+        <attribute name="name" value="phys-ent-participant10967" />
+        <attribute name="name" value="ent-kaurene synthase (LOC_OS04G52230.1)" />
+        <attribute name="DB_ID" value="1121891" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="_displayName" value="terpene synthase (LOC_OS04G52210.1) [cytosol]" />
+        <attribute name="hasMember" class="EntityWithAccessionedSequence" referTo="1129421" />
+        <attribute name="hasMember" class="EntityWithAccessionedSequence" referTo="1129297" />
+        <attribute name="hasMember" class="EntityWithAccessionedSequence" referTo="1122782" />
+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
+      <instance DB_ID="1122177" displayName="ent-kaurene synthase (LOC_OS02G17780.1) [plastid]" isShell="false" isDirty="false">
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="ent-kaurene synthase (LOC_OS02G17780.1)" />
+        <attribute name="name" value="ent-kaurene synthase (LOC_OS02G36210.1)" />
+        <attribute name="name" value="ent-kaurene synthase A (LOC_OS09G15050.1)" />
+        <attribute name="DB_ID" value="1122177" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="_displayName" value="ent-kaurene synthase (LOC_OS02G17780.1) [plastid]" />
+        <attribute name="hasMember" class="EntityWithAccessionedSequence" referTo="1129687" />
+        <attribute name="hasMember" class="EntityWithAccessionedSequence" referTo="1128244" />
+        <attribute name="hasMember" class="EntityWithAccessionedSequence" referTo="1126280" />
+        <attribute name="compartment" class="EntityCompartment" referTo="841" />
+      </instance>
+    </DefinedSet>
+    <Pathway>
+      <instance DB_ID="1119557" displayName="GA12 biosynthesis" isShell="false" isDirty="true">
+        <attribute name="summation" class="Summation" referTo="1119236" />
+        <attribute name="_doRelease" value="true" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA12 biosynthesis" />
+        <attribute name="name" value="gibberellin A&lt;sub&gt;12&lt;/sub&gt; biosynthesis" />
+        <attribute name="name" value="pathway101002" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120957" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120539" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120253" />
+        <attribute name="hasEvent" class="Reaction" referTo="1121097" />
+        <attribute name="hasEvent" class="Reaction" referTo="1119763" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120950" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1134213" />
+        <attribute name="DB_ID" value="1119557" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="_displayName" value="GA12 biosynthesis" />
+      </instance>
+    </Pathway>
+    <EntityCompartment>
+      <instance DB_ID="70101" displayName="cytosol" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="70101" />
+        <attribute name="definition" value="The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes." />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="258163" />
+        <attribute name="_displayName" value="cytosol" />
+        <attribute name="modified" class="InstanceEdit" referTo="160533" />
+        <attribute name="modified" class="InstanceEdit" referTo="162607" />
+        <attribute name="modified" class="InstanceEdit" referTo="171322" />
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+        <attribute name="modified" class="InstanceEdit" referTo="1996004" />
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+        <attribute name="modified" class="InstanceEdit" referTo="2454362" />
+        <attribute name="modified" class="InstanceEdit" referTo="2455542" />
+        <attribute name="name" value="cytosol" />
+        <attribute name="accession" value="0005829" />
+      </instance>
+      <instance DB_ID="841" displayName="plastid" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="841" />
+        <attribute name="definition" value="Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid." />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="159960" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="258163" />
+        <attribute name="_displayName" value="plastid" />
+        <attribute name="modified" class="InstanceEdit" referTo="1112778" />
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+        <attribute name="modified" class="InstanceEdit" referTo="2454362" />
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+        <attribute name="name" value="plastid" />
+        <attribute name="accession" value="0009536" />
+      </instance>
+      <instance DB_ID="-6" displayName="" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-6" />
+      </instance>
+      <instance DB_ID="-7" displayName="" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-7" />
+      </instance>
+      <instance DB_ID="5462" displayName="mitochondrion" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="5462" />
+        <attribute name="definition" value="A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="159960" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="258163" />
+        <attribute name="_displayName" value="mitochondrion" />
+        <attribute name="modified" class="InstanceEdit" referTo="160533" />
+        <attribute name="modified" class="InstanceEdit" referTo="162607" />
+        <attribute name="modified" class="InstanceEdit" referTo="171322" />
+        <attribute name="modified" class="InstanceEdit" referTo="212600" />
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+        <attribute name="modified" class="InstanceEdit" referTo="2454362" />
+        <attribute name="modified" class="InstanceEdit" referTo="2455542" />
+        <attribute name="name" value="mitochondrion" />
+        <attribute name="accession" value="0005739" />
+      </instance>
+    </EntityCompartment>
+    <CatalystActivity>
+      <instance DB_ID="1118124" displayName="ent-kaurene oxidation to kaurenoic acid activity of cytochrome P450 (LOC_OS06G37300.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118124" />
+        <attribute name="physicalEntity" class="EntityWithAccessionedSequence" referTo="1130405" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="ent-kaurene oxidation to kaurenoic acid activity of cytochrome P450 (LOC_OS06G37300.1) [cytosol]" />
+        <attribute name="activity" class="GO_MolecularFunction" referTo="161401" />
+      </instance>
+      <instance DB_ID="1118177" displayName="unknown activity of cytochrome P450 (LOC_OS06G02019.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118177" />
+        <attribute name="physicalEntity" class="EntityWithAccessionedSequence" referTo="1125766" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="unknown activity of cytochrome P450 (LOC_OS06G02019.1) [cytosol]" />
+      </instance>
+      <instance DB_ID="1119168" displayName="ent-copalyl diphosphate synthase activity of ent-kaurene synthase (LOC_OS02G17780.1) [plastid]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1119168" />
+        <attribute name="physicalEntity" class="DefinedSet" referTo="1122177" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="ent-copalyl diphosphate synthase activity of ent-kaurene synthase (LOC_OS02G17780.1) [plastid]" />
+        <attribute name="activity" class="GO_MolecularFunction" referTo="6009" />
+      </instance>
+      <instance DB_ID="1118213" displayName="ent-kaurene oxidation to kaurenoic acid activity of cytochrome P450 (LOC_OS06G37300.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118213" />
+        <attribute name="physicalEntity" class="EntityWithAccessionedSequence" referTo="1130405" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="ent-kaurene oxidation to kaurenoic acid activity of cytochrome P450 (LOC_OS06G37300.1) [cytosol]" />
+        <attribute name="activity" class="GO_MolecularFunction" referTo="161401" />
+      </instance>
+      <instance DB_ID="1118203" displayName="ent-kaurene synthase activity of terpene synthase (LOC_OS04G52210.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118203" />
+        <attribute name="physicalEntity" class="DefinedSet" referTo="1121891" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="ent-kaurene synthase activity of terpene synthase (LOC_OS04G52210.1) [cytosol]" />
+        <attribute name="activity" class="GO_MolecularFunction" referTo="5662" />
+      </instance>
+      <instance DB_ID="1118202" displayName="ent-kaurene oxidation to kaurenoic acid activity of cytochrome P450 (LOC_OS06G37300.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118202" />
+        <attribute name="physicalEntity" class="EntityWithAccessionedSequence" referTo="1130405" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="ent-kaurene oxidation to kaurenoic acid activity of cytochrome P450 (LOC_OS06G37300.1) [cytosol]" />
+        <attribute name="activity" class="GO_MolecularFunction" referTo="161401" />
+      </instance>
+      <instance DB_ID="1118490" displayName="unknown activity of cytochrome P450 (LOC_OS06G02019.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118490" />
+        <attribute name="physicalEntity" class="EntityWithAccessionedSequence" referTo="1125766" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="unknown activity of cytochrome P450 (LOC_OS06G02019.1) [cytosol]" />
+      </instance>
+      <instance DB_ID="1118330" displayName="unknown activity of cytochrome P450 (LOC_OS06G02019.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118330" />
+        <attribute name="physicalEntity" class="EntityWithAccessionedSequence" referTo="1125766" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="unknown activity of cytochrome P450 (LOC_OS06G02019.1) [cytosol]" />
+      </instance>
+    </CatalystActivity>
+    <ReferenceIsoform>
+      <instance DB_ID="-3" displayName="UniProt:Q0JA83-2 LOC_Os04g52210" isShell="false" isDirty="true">
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="secondaryIdentifier" value="KSL3_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="Q0WYX1" />
+        <attribute name="secondaryIdentifier" value="Q69DS8" />
+        <attribute name="secondaryIdentifier" value="Q7XLE2" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="terpene synthase, putative, expressed//ent-kaurene synthase" />
+        <attribute name="name" value="protein11207" />
+        <attribute name="geneName" value="LOC_Os04g52210" />
+        <attribute name="geneName" value="KSL3" />
+        <attribute name="geneName" value="KS2" />
+        <attribute name="geneName" value="Os04g0611700" />
+        <attribute name="geneName" value="OSJNBa0070C17.6" />
+        <attribute name="variantIdentifier" value="Q0JA83-2" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1147746" />
+        <attribute name="isoformParent" class="ReferenceGeneProduct" referTo="1156484" />
+        <attribute name="DB_ID" value="-3" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="keyword" value="Alternative splicing" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Lyase" />
+        <attribute name="keyword" value="Magnesium" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Plant defense" />
+        <attribute name="_displayName" value="UniProt:Q0JA83-2 LOC_Os04g52210" />
+        <attribute name="comment" value="COFACTOR: Binds 3 magnesium ions per subunit (By similarity)." />
+        <attribute name="comment" value="ALTERNATIVE PRODUCTS: Event=Alternative splicing; Named isoforms=2; Name=1; IsoId=Q0JA83-1; Sequence=Displayed; Name=2; IsoId=Q0JA83-2; Sequence=VSP_037140, VSP_037141;" />
+        <attribute name="comment" value="TISSUE SPECIFICITY: Expressed in roots and stems." />
+        <attribute name="comment" value="DEVELOPMENTAL STAGE: Expressed in seeds from 2 to 6 days after imbibition." />
+        <attribute name="comment" value="DOMAIN: The Asp-Asp-Xaa-Xaa-Asp/Glu (DDXXD/E) motif is important for the catalytic activity, presumably through binding to Mg(2+)." />
+        <attribute name="comment" value="SIMILARITY: Belongs to the terpene synthase family." />
+        <attribute name="identifier" value="Q0JA83" />
+      </instance>
+    </ReferenceIsoform>
+    <Person>
+      <instance DB_ID="1164674" displayName="Motegi, A" isShell="true" />
+      <instance DB_ID="1164848" displayName="Miura, K" isShell="true" />
+      <instance DB_ID="1164852" displayName="Ishiyama, K" isShell="true" />
+      <instance DB_ID="1164857" displayName="Miyao, A" isShell="true" />
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+      <instance DB_ID="1164860" displayName="Ashikari, M" isShell="true" />
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+      <instance DB_ID="1427665" displayName="Agrawal, GK" isShell="true" />
+      <instance DB_ID="1164812" displayName="Toyomasu, T" isShell="true" />
+      <instance DB_ID="1112777" displayName="Wu, G" isShell="true" />
+      <instance DB_ID="1164851" displayName="Ueguchi-Tanaka, M" isShell="true" />
+      <instance DB_ID="1164934" displayName="Toshima, H" isShell="true" />
+      <instance DB_ID="1164850" displayName="Tatsumi, T" isShell="true" />
+      <instance DB_ID="1164847" displayName="Sakamoto, T" isShell="true" />
+      <instance DB_ID="1164673" displayName="Kanno, Y" isShell="true" />
+      <instance DB_ID="1164858" displayName="Hirochika, H" isShell="true" />
+      <instance DB_ID="1164933" displayName="Oikawa, H" isShell="true" />
+      <instance DB_ID="1164677" displayName="Mitsuhashi, W" isShell="true" />
+      <instance DB_ID="1164856" displayName="Abe, K" isShell="true" />
+      <instance DB_ID="1164836" displayName="Matsuoka, M" isShell="true" />
+      <instance DB_ID="1164675" displayName="kenmoku, H" isShell="true" />
+      <instance DB_ID="1164855" displayName="Takeda, S" isShell="true" />
+      <instance DB_ID="1164853" displayName="Kobayashi, M" isShell="true" />
+      <instance DB_ID="1164859" displayName="Kitano, H" isShell="true" />
+      <instance DB_ID="1164813" displayName="Sassa, T" isShell="true" />
+      <instance DB_ID="1164676" displayName="Yamane, H" isShell="true" />
+    </Person>
+    <Species>
+      <instance DB_ID="186860" displayName="Oryza sativa" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="186860" />
+        <attribute name="superTaxon" class="Taxon" referTo="186856" />
+        <attribute name="created" class="InstanceEdit" referTo="186845" />
+        <attribute name="name" value="Oryza sativa" />
+        <attribute name="name" value="rice" />
+        <attribute name="_displayName" value="Oryza sativa" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="186858" />
+      </instance>
+      <instance DB_ID="-1" displayName="Oryza sativa subsp. japonica" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-1" />
+        <attribute name="name" value="Oryza sativa subsp. japonica" />
+        <attribute name="_displayName" value="Oryza sativa subsp. japonica" />
+      </instance>
+    </Species>
+    <ReferenceDatabase>
+      <instance DB_ID="1" displayName="GO" isShell="true" />
+      <instance DB_ID="4" displayName="EC" isShell="true" />
+      <instance DB_ID="1118109" displayName="RiceCyc" isShell="true" />
+      <instance DB_ID="2" displayName="UniProt" isShell="true" />
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+        <attribute name="modified" class="InstanceEdit" referTo="937668" />
+        <attribute name="modified" class="InstanceEdit" referTo="938674" />
+        <attribute name="modified" class="InstanceEdit" referTo="1042299" />
+        <attribute name="modified" class="InstanceEdit" referTo="1043152" />
+        <attribute name="modified" class="InstanceEdit" referTo="1220942" />
+        <attribute name="modified" class="InstanceEdit" referTo="1221553" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301009" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301023" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301626" />
+        <attribute name="modified" class="InstanceEdit" referTo="1552540" />
+        <attribute name="modified" class="InstanceEdit" referTo="1552982" />
+        <attribute name="modified" class="InstanceEdit" referTo="1996004" />
+        <attribute name="modified" class="InstanceEdit" referTo="1996190" />
+        <attribute name="modified" class="InstanceEdit" referTo="2132408" />
+        <attribute name="modified" class="InstanceEdit" referTo="2133145" />
+        <attribute name="modified" class="InstanceEdit" referTo="2133759" />
+        <attribute name="modified" class="InstanceEdit" referTo="2133760" />
+        <attribute name="modified" class="InstanceEdit" referTo="2133761" />
+        <attribute name="modified" class="InstanceEdit" referTo="2266115" />
+        <attribute name="modified" class="InstanceEdit" referTo="2266117" />
+        <attribute name="modified" class="InstanceEdit" referTo="2266118" />
+        <attribute name="modified" class="InstanceEdit" referTo="2266147" />
+        <attribute name="modified" class="InstanceEdit" referTo="2267216" />
+        <attribute name="modified" class="InstanceEdit" referTo="2454362" />
+        <attribute name="modified" class="InstanceEdit" referTo="2455542" />
+        <attribute name="modified" class="InstanceEdit" referTo="2455544" />
+        <attribute name="name" value="ent-copalyl diphosphate synthase activity" />
+        <attribute name="accession" value="0009905" />
+      </instance>
+      <instance DB_ID="3040" displayName="intramolecular lyase activity" isShell="true" />
+    </GO_MolecularFunction>
+    <Taxon>
+      <instance DB_ID="186856" displayName="Oryza" isShell="true" />
+    </Taxon>
+    <ReferenceGeneProduct>
+      <instance DB_ID="1155763" displayName="UniProt:Q0JA82 LOC_Os04g52230" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1155763" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Chloroplast" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Lyase" />
+        <attribute name="keyword" value="Magnesium" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Plastid" />
+        <attribute name="keyword" value="Transit peptide" />
+        <attribute name="_displayName" value="UniProt:Q0JA82 LOC_Os04g52230" />
+        <attribute name="secondaryIdentifier" value="KS1_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="Q2PHF3" />
+        <attribute name="secondaryIdentifier" value="Q69DT1" />
+        <attribute name="secondaryIdentifier" value="Q7XLE0" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="description" value="Catalyzes the conversion of ent-copalyl diphosphate to the gibberellin precursor ent-kaur-16-ene. The evidence is at protein level and this protein is located in the plastid. Involved in GA synthesis. Highly expressed in panicles and at lower levels in leaves and stems. Plants lacking KS1 display a dwarf phenotype with normal root development, but severe stunting of shoots in seedlings, dark green leaves and failure to initiate flowering. This phenotype can be rescued by treatment with exogenous gibberellin. (Dr. Sushma Naithani)" />
+        <attribute name="geneName" value="LOC_Os04g52230" />
+        <attribute name="geneName" value="KS1" />
+        <attribute name="geneName" value="KS1A" />
+        <attribute name="geneName" value="Os04g0611800" />
+        <attribute name="geneName" value="OSJNBa0070C17.8" />
+        <attribute name="name" value="ent-kaurene synthase, chloroplast precursor, putative, expressed//metabolic process//gibberellin metabolic process//ent-kaurene synthase" />
+        <attribute name="name" value="protein11213" />
+        <attribute name="comment" value="FUNCTION: Catalyzes the conversion of ent-copalyl diphosphate to the gibberellin precursor ent-kaur-16-ene." />
+        <attribute name="comment" value="CATALYTIC ACTIVITY: Ent-copalyl diphosphate = ent-kaurene + diphosphate." />
+        <attribute name="comment" value="COFACTOR: Binds 3 magnesium ions per subunit (By similarity)." />
+        <attribute name="comment" value="PATHWAY: Plant hormone biosynthesis; gibberellin biosynthesis." />
+        <attribute name="comment" value="SUBCELLULAR LOCATION: Plastid, chloroplast (Potential)." />
+        <attribute name="comment" value="TISSUE SPECIFICITY: Highly expressed in panicles and at lower levels in leaves and stems." />
+        <attribute name="comment" value="DOMAIN: The Asp-Asp-Xaa-Xaa-Asp/Glu (DDXXD/E) motif is important for the catalytic activity, presumably through binding to Mg(2+)." />
+        <attribute name="comment" value="MISCELLANEOUS: Plants lacking KS1 display a dwarf phenotype with normal root development, but severe stunting of shoots in seedlings, dark green leaves and failure to initiate flowering. This phenotype can be rescued by treatment with exogenous gibberellin." />
+        <attribute name="comment" value="SIMILARITY: Belongs to the terpene synthase family." />
+        <attribute name="identifier" value="Q0JA82" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1150542" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1154164" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1149441" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1142667" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1143272" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1134616" />
+      </instance>
+      <instance DB_ID="1156452" displayName="UniProt:Q5VRM7 LOC_OS06G02019" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1156452" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Heme" />
+        <attribute name="keyword" value="Iron" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Monooxygenase" />
+        <attribute name="keyword" value="Oxidoreductase" />
+        <attribute name="_displayName" value="UniProt:Q5VRM7 LOC_OS06G02019" />
+        <attribute name="secondaryIdentifier" value="Q5VRM7_ORYSJ" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="geneName" value="LOC_OS06G02019" />
+        <attribute name="geneName" value="OSJNBa0004I20.18" />
+        <attribute name="geneName" value="Os06g0110000" />
+        <attribute name="geneName" value="P0514G12.42" />
+        <attribute name="name" value="cytochrome P450, putative, expressed//electron transport chain//gibberellin metabolic process//monooxygenase activity//secretion by cell" />
+        <attribute name="name" value="Kao" />
+        <attribute name="name" value="protein85703" />
+        <attribute name="identifier" value="Q5VRM7" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1133359" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1132740" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1150934" />
+      </instance>
+      <instance DB_ID="1156752" displayName="UniProt:Q6ET36 LOC_Os02g17780" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1156752" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Chloroplast" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Isomerase" />
+        <attribute name="keyword" value="Magnesium" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Plastid" />
+        <attribute name="keyword" value="Transit peptide" />
+        <attribute name="_displayName" value="UniProt:Q6ET36 LOC_Os02g17780" />
+        <attribute name="secondaryIdentifier" value="CPS1_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="Q68BJ4" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="geneName" value="LOC_Os02g17780" />
+        <attribute name="geneName" value="CPS1" />
+        <attribute name="geneName" value="Os02g0278700" />
+        <attribute name="geneName" value="P0444A09.11" />
+        <attribute name="name" value="ent-kaurene synthase, chloroplast precursor, putative, expressed//diterpene phytoalexin precursor biosynthetic process pathway//metabolic process//ent-copalyl diphosphate synthase" />
+        <attribute name="name" value="protein7785" />
+        <attribute name="comment" value="FUNCTION: Catalyzes the conversion of geranylgeranyl diphosphate to the gibberellin precursor ent-copalyl diphosphate." />
+        <attribute name="comment" value="CATALYTIC ACTIVITY: Geranylgeranyl diphosphate = ent-copalyl diphosphate." />
+        <attribute name="comment" value="COFACTOR: Magnesium (Potential)." />
+        <attribute name="comment" value="PATHWAY: Plant hormone biosynthesis; gibberellin biosynthesis." />
+        <attribute name="comment" value="SUBCELLULAR LOCATION: Plastid, chloroplast (Potential)." />
+        <attribute name="comment" value="DEVELOPMENTAL STAGE: Expressed in developing pollen from 7 days before flowering." />
+        <attribute name="comment" value="DOMAIN: The Asp-Xaa-Asp-Asp (DXDD) motif is important for the catalytic activity, presumably through binding to Mg(2+)." />
+        <attribute name="comment" value="MISCELLANEOUS: 2 different ent-CDP synthases exist in rice, one being involved in gibberellin biosynthesis and the other in phytoalexins biosynthesis." />
+        <attribute name="identifier" value="Q6ET36" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1139365" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1140067" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1140842" />
+      </instance>
+      <instance DB_ID="1158992" displayName="UniProt:Q0JA81 LOC_Os04g52240" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1158992" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Lyase" />
+        <attribute name="keyword" value="Magnesium" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Plant defense" />
+        <attribute name="_displayName" value="UniProt:Q0JA81 LOC_Os04g52240" />
+        <attribute name="secondaryIdentifier" value="KSL2_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="A4KAG6" />
+        <attribute name="secondaryIdentifier" value="Q7XLD9" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="description" value="Ent-kaurene synthase-like 2. Evidence at transcript level. Expressed in roots." />
+        <attribute name="geneName" value="LOC_Os04g52240" />
+        <attribute name="geneName" value="KSL2" />
+        <attribute name="geneName" value="Os04g0612000" />
+        <attribute name="geneName" value="OSJNBa0070C17.9" />
+        <attribute name="name" value="terpene synthase, putative//metabolic process//gibberellin metabolic process//ent-kaurene synthase" />
+        <attribute name="name" value="protein10791" />
+        <attribute name="comment" value="COFACTOR: Binds 3 magnesium ions per subunit (By similarity)." />
+        <attribute name="comment" value="TISSUE SPECIFICITY: Expressed in roots." />
+        <attribute name="comment" value="DOMAIN: The Asp-Asp-Xaa-Xaa-Asp/Glu (DDXXD/E) motif is important for the catalytic activity, presumably through binding to Mg(2+)." />
+        <attribute name="comment" value="SIMILARITY: Belongs to the terpene synthase family." />
+        <attribute name="identifier" value="Q0JA81" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1148264" />
+      </instance>
+      <instance DB_ID="1160922" displayName="UniProt:Q0DBF4 LOC_Os06g37300" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1160922" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Heme" />
+        <attribute name="keyword" value="Iron" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Monooxygenase" />
+        <attribute name="keyword" value="Oxidoreductase" />
+        <attribute name="_displayName" value="UniProt:Q0DBF4 LOC_Os06g37300" />
+        <attribute name="secondaryIdentifier" value="Q0DBF4_ORYSJ" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="description" value="modified by Sushma Naithani on Oct-03-2012" />
+        <attribute name="geneName" value="LOC_Os06g37300" />
+        <attribute name="geneName" value="Os06g0569500" />
+        <attribute name="name" value="cytochrome P450, putative, expressed//electron transport chain//secretion by cell//gibberellin biosynthetic process" />
+        <attribute name="name" value="protein85964" />
+        <attribute name="comment" value="In the current database, only UniprotKB:Q0DBF4 is associated with this gene" />
+        <attribute name="identifier" value="Q0DBF4" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1152588" />
+      </instance>
+      <instance DB_ID="1154836" displayName="UniProt:Q6Z5I0 LOC_Os02g36210" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1154836" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Isomerase" />
+        <attribute name="keyword" value="Magnesium" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Plant defense" />
+        <attribute name="_displayName" value="UniProt:Q6Z5I0 LOC_Os02g36210" />
+        <attribute name="secondaryIdentifier" value="OsCyc2 (from Uniprot)- added by Sushma Naithani" />
+        <attribute name="secondaryIdentifier" value="CPS2_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="Q0E085" />
+        <attribute name="secondaryIdentifier" value="Q68CL9" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="description" value="Catalyzes the conversion of geranylgeranyl diphosphate to the phytoalexin precursor ent-copalyl diphosphate. (sn)" />
+        <attribute name="description" value="Its likely to be involved in phytoalexins biosynthesis and likely a mitochondrial protein (TargetP score=0.632). Catalyzes the conversion of geranylgeranyl diphosphate to the phytoalexin precursor ent-copalyl diphosphate.  Evidence at transcript level. 2 different ent-CDP synthases exist in rice, one being involved in gibberellin biosynthesis and the other in phytoalexins biosynthesis. Phytoalexins are diterpenoid secondary metabolites involved in the defense mechanism of the plant and produced in response to attack (by a pathogen, elicitor or UV irradiation). The transcript is induced by UV-light." />
+        <attribute name="geneName" value="LOC_Os02g36210" />
+        <attribute name="geneName" value="CPS2" />
+        <attribute name="geneName" value="CYC2" />
+        <attribute name="geneName" value="Os02g0571100" />
+        <attribute name="geneName" value="OsJ_006996" />
+        <attribute name="geneName" value="P0689H05.16" />
+        <attribute name="name" value="ent-kaurene synthase, likely to be targeted to Mitochondria and involved in phytoalexins biosynthesis. (Sushma Naithani)" />
+        <attribute name="comment" value="FUNCTION: Catalyzes the conversion of geranylgeranyl diphosphate to the phytoalexin precursor ent-copalyl diphosphate." />
+        <attribute name="comment" value="CATALYTIC ACTIVITY: Geranylgeranyl diphosphate = ent-copalyl diphosphate." />
+        <attribute name="comment" value="COFACTOR: Magnesium (Potential)." />
+        <attribute name="comment" value="INDUCTION: By UV irradiation." />
+        <attribute name="comment" value="DOMAIN: The Asp-Xaa-Asp-Asp (DXDD) motif is important for the catalytic activity, presumably through binding to Mg(2+)." />
+        <attribute name="comment" value="MISCELLANEOUS: 2 different ent-CDP synthases exist in rice, one being involved in gibberellin biosynthesis and the other in phytoalexins biosynthesis. Phytoalexins are diterpenoid secondary metabolites involved in the defense mechanism of the plant and produced in response to attack (by a pathogen, elicitor or UV irradiation)." />
+        <attribute name="comment" value="SIMILARITY: Belongs to the terpene synthase family." />
+        <attribute name="identifier" value="Q6Z5I0" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1134182" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1134815" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1135639" />
+      </instance>
+      <instance DB_ID="1156484" displayName="UniProt:Q0JA83 LOC_Os04g52210" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1156484" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Alternative splicing" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Lyase" />
+        <attribute name="keyword" value="Magnesium" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Plant defense" />
+        <attribute name="_displayName" value="UniProt:Q0JA83 LOC_Os04g52210" />
+        <attribute name="secondaryIdentifier" value="KSL3_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="Q0WYX1" />
+        <attribute name="secondaryIdentifier" value="Q69DS8" />
+        <attribute name="secondaryIdentifier" value="Q7XLE2" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="description" value="Ent-kaurene synthase-like 3,  predicted to be in chloroplast stroma. Evidence at transcript level. (added by Dr. Sushma Naithani)" />
+        <attribute name="geneName" value="LOC_Os04g52210" />
+        <attribute name="geneName" value="KSL3" />
+        <attribute name="geneName" value="KS2" />
+        <attribute name="geneName" value="Os04g0611700" />
+        <attribute name="geneName" value="OSJNBa0070C17.6" />
+        <attribute name="name" value="terpene synthase, putative, expressed//ent-kaurene synthase" />
+        <attribute name="name" value="protein11207" />
+        <attribute name="comment" value="COFACTOR: Binds 3 magnesium ions per subunit (By similarity)." />
+        <attribute name="comment" value="ALTERNATIVE PRODUCTS: Event=Alternative splicing; Named isoforms=2; Name=1; IsoId=Q0JA83-1; Sequence=Displayed; Name=2; IsoId=Q0JA83-2; Sequence=VSP_037140, VSP_037141;" />
+        <attribute name="comment" value="TISSUE SPECIFICITY: Expressed in roots and stems." />
+        <attribute name="comment" value="DEVELOPMENTAL STAGE: Expressed in seeds from 2 to 6 days after imbibition." />
+        <attribute name="comment" value="DOMAIN: The Asp-Asp-Xaa-Xaa-Asp/Glu (DDXXD/E) motif is important for the catalytic activity, presumably through binding to Mg(2+)." />
+        <attribute name="comment" value="SIMILARITY: Belongs to the terpene synthase family." />
+        <attribute name="identifier" value="Q0JA83" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1147746" />
+      </instance>
+      <instance DB_ID="1159174" displayName="UniProt:Q69M33 LOC_Os09g15050" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1159174" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="sequenceLength" value="304" />
+        <attribute name="_displayName" value="UniProt:Q69M33 LOC_Os09g15050" />
+        <attribute name="secondaryIdentifier" value="Q69M33_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="Q69M33_ORYSJ" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="description" value="According to Sakamoto et al. (2004), this gene has a premature stop codon in the third exon. Therefore it is considered as a pseudogene. (Imported from Gene GR:0101306)" />
+        <attribute name="geneName" value="LOC_Os09g15050" />
+        <attribute name="geneName" value="Os09g0319800" />
+        <attribute name="geneName" value="OSJNBb0051H02.22" />
+        <attribute name="geneName" value="OSJNBa0035G04.5" />
+        <attribute name="geneName" value="OsJ_28845" />
+        <attribute name="geneName" value="OSJNBb0051H02.22" />
+        <attribute name="geneName" value="OSJNBa0035G04.5" />
+        <attribute name="geneName" value="OsJ_28845" />
+        <attribute name="name" value="ent-kaurene synthase A, chloroplast precursor, putative, expressed" />
+        <attribute name="name" value="protein7779" />
+        <attribute name="comment" value="added curation Sushma Naithani, 2012" />
+        <attribute name="identifier" value="Q69M33" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1145827" />
+      </instance>
+    </ReferenceGeneProduct>
+    <InstanceEdit>
+      <instance DB_ID="526073" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="1301009" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="396309" displayName="Kanapin, EE, 2009-03-09 13:26:57" isShell="true" />
+      <instance DB_ID="422569" displayName="Kanapin, EE" isShell="true" />
+      <instance DB_ID="1164949" displayName="Wu, G, 2012--1-0-" isShell="false" isDirty="true">
+        <attribute name="author" class="Person" referTo="1112777" />
+        <attribute name="DB_ID" value="1164949" />
+        <attribute name="dateTime" value="2012-10-03" />
+        <attribute name="_displayName" value="Wu, G, 2012--1-0-" />
+      </instance>
+      <instance DB_ID="528085" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="2132408" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1301023" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2454362" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1250432" displayName="D'Eustachio, P, 2011-04-19" isShell="true" />
+      <instance DB_ID="160533" displayName="Schmidt, EE, 2005-03-23 05:24:35" isShell="true" />
+      <instance DB_ID="1236708" displayName="Garapati, P V, 2011-03-28" isShell="true" />
+      <instance DB_ID="357819" displayName="Kanapin, EE, 2008-06-18 10:45:39" isShell="true" />
+      <instance DB_ID="615500" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="162607" displayName="Schmidt, EE, 2005-04-01 11:06:09" isShell="true" />
+      <instance DB_ID="447572" displayName="Kanapin, EE" isShell="true" />
+      <instance DB_ID="171322" displayName="Schmidt, EE, 2006-02-06 10:50:16" isShell="true" />
+      <instance DB_ID="376438" displayName="Kanapin, EE, 2008-09-08 10:23:04" isShell="true" />
+      <instance DB_ID="1042299" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1220942" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="386933" displayName="Mahajan, SS, 2008-11-27 13:16:57" isShell="true" />
+      <instance DB_ID="186845" displayName="D'Eustachio, P, 2006-08-28 17:20:12" isShell="true" />
+      <instance DB_ID="436347" displayName="Kanapin, EE" isShell="true" />
+      <instance DB_ID="2266118" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1169175" displayName="D'Eustachio, P, 2011-01-12" isShell="true" />
+      <instance DB_ID="1173252" displayName="D'Eustachio, P, 2011-01-21" isShell="true" />
+      <instance DB_ID="2266147" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1552540" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="258122" displayName="Kanapin, EE, 2008-03-27 12:15:20" isShell="true" />
+      <instance DB_ID="1614743" displayName="D'Eustachio, P, 2011-09-29" isShell="true" />
+      <instance DB_ID="2133145" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="2455542" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="797782" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="383393" displayName="Kanapin, AA, 2008-11-26 13:49:44" isShell="true" />
+      <instance DB_ID="1112778" displayName="Wu, G, 2010-12-10" isShell="true" />
+      <instance DB_ID="2395859" displayName="Jassal, B, 2012-07-03" isShell="true" />
+      <instance DB_ID="937668" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1996004" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1169158" displayName="D'Eustachio, P, 2011-01-12" isShell="true" />
+      <instance DB_ID="212600" displayName="Mahajan, SS, 2008-02-12 19:05:29" isShell="true" />
+      <instance DB_ID="-11" displayName="" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-11" />
+        <attribute name="dateTime" value="20121005181306" />
+      </instance>
+      <instance DB_ID="162334" displayName="Schmidt, EE, 2005-03-23 05:45:22" isShell="true" />
+      <instance DB_ID="423222" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="448165" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="938674" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1043152" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1221553" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1301626" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1552982" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1996190" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2133759" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2133760" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2133761" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2266115" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2266117" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2267216" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2455544" displayName="Yung, CK" isShell="true" />
+    </InstanceEdit>
+    <GO_BiologicalProcess>
+      <instance DB_ID="262961" displayName="ent-kaurene metabolic process" isShell="true" />
+      <instance DB_ID="357845" displayName="oxidation-reduction process" isShell="true" />
+    </GO_BiologicalProcess>
+  </reactome>
+</rtpj>
+

diff --git a/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis I (non C-13 hydroxylation)sn2.rtpj b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis I (non C-13 hydroxylation)sn2.rtpj
new file mode 100644 (file)
index 0000000..6d5d772
--- /dev/null
+++ b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis I (non C-13 hydroxylation)sn2.rtpj
@@ -0,0 +1,2323 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<rtpj>
+  <reactome>
+    <Affiliation>
+      <instance DB_ID="-5" displayName="Oregon State University" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-5" />
+        <attribute name="name" value="Oregon State University" />
+        <attribute name="_displayName" value="Oregon State University" />
+      </instance>
+    </Affiliation>
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+        <attribute name="DB_ID" value="1119236" />
+        <attribute name="text" value="Data source: RiceCyc" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="Data source: RiceCyc" />
+        <attribute name="modified" class="InstanceEdit" referTo="1169158" />
+        <attribute name="modified" class="InstanceEdit" referTo="1169175" />
+      </instance>
+      <instance DB_ID="-2" displayName="gibberellin 20-oxidase, catalyzes conversion of GA12 to GA15..." isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-2" />
+        <attribute name="text" value="gibberellin 20-oxidase, catalyzes conversion of GA12 to GA15 and several other reactions of gibberllin biosynthesis pathway." />
+        <attribute name="_displayName" value="gibberellin 20-oxidase, catalyzes conversion of GA12 to GA15..." />
+      </instance>
+      <instance DB_ID="-6" displayName="gibberellin 20-oxidase involved in several reactions of gibb..." isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-6" />
+        <attribute name="text" value="gibberellin 20-oxidase involved in several reactions of gibberllin biosynthesis pathway." />
+        <attribute name="_displayName" value="gibberellin 20-oxidase involved in several reactions of gibb..." />
+      </instance>
+    </Summation>
+    <EntityWithAccessionedSequence>
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+        <attribute name="summation" class="Summation" referTo="-2" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1)" />
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+        <attribute name="name" value="phys-ent-participant86634" />
+        <attribute name="DB_ID" value="1128069" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="definition" value="Compartment: cellular_component unknown" />
+        <attribute name="referenceEntity" class="ReferenceGeneProduct" referTo="1157441" />
+        <attribute name="_displayName" value="gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" />
+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
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+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="oxidoreductase (LOC_OS01G09300.1)" />
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+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
+    </EntityWithAccessionedSequence>
+    <GO_CellularComponent>
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+      <instance DB_ID="258163" displayName="cytoplasmic part" isShell="true" />
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+        <attribute name="name" value="cytosol" />
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+    <Taxon>
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+    <Person>
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+        <attribute name="surname" value="Naithani" />
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+        <attribute name="_displayName" value="Naithani, sushma" />
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+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
+      <instance DB_ID="1121547" displayName="GA24+O2+alpha-ketoglutarate-&gt;GA9+CO2+succinate" isShell="false" isDirty="true">
+        <attribute name="catalystActivity" class="CatalystActivity" referTo="1118824" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA24+O2+alpha-ketoglutarate-&gt;GA9+CO2+succinate" />
+        <attribute name="name" value="RXN1F-164" />
+        <attribute name="name" value="biochemicalReaction86777" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1146365" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1121547" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1119768" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1119768" />
+        <attribute name="_displayName" value="GA24+O2+alpha-ketoglutarate-&gt;GA9+CO2+succinate" />
+        <attribute name="input" class="SimpleEntity" referTo="1131476" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="revised" class="InstanceEdit" referTo="-3" />
+        <attribute name="output" class="SimpleEntity" referTo="1131912" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
+      <instance DB_ID="1121181" displayName="GA15+alpha-ketoglutarate+O2-&gt;GA37+succinate+CO2" isShell="false" isDirty="true">
+        <attribute name="_doRelease" value="false" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA15+alpha-ketoglutarate+O2-&gt;GA37+succinate+CO2" />
+        <attribute name="name" value="RXN-6522" />
+        <attribute name="name" value="biochemicalReaction87040" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1134335" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1121181" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1121418" />
+        <attribute name="_displayName" value="GA15+alpha-ketoglutarate+O2-&gt;GA37+succinate+CO2" />
+        <attribute name="input" class="SimpleEntity" referTo="1131412" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="revised" class="InstanceEdit" referTo="-3" />
+        <attribute name="output" class="SimpleEntity" referTo="1130960" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
+      <instance DB_ID="1120759" displayName="GA24+O2+alpha-ketoglutarate-&gt;GA25+CO2+succinate" isShell="false" isDirty="true">
+        <attribute name="catalystActivity" class="CatalystActivity" referTo="1119172" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA24+O2+alpha-ketoglutarate-&gt;GA25+CO2+succinate" />
+        <attribute name="name" value="RXN1F-99" />
+        <attribute name="name" value="biochemicalReaction86614" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1146457" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1120759" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1119768" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1119768" />
+        <attribute name="_displayName" value="GA24+O2+alpha-ketoglutarate-&gt;GA25+CO2+succinate" />
+        <attribute name="input" class="SimpleEntity" referTo="1131476" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="revised" class="InstanceEdit" referTo="-3" />
+        <attribute name="output" class="SimpleEntity" referTo="1131251" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
+      <instance DB_ID="1120542" displayName="GA25+alpha-ketoglutarate+O2-&gt;GA13+succinate+CO2" isShell="false" isDirty="true">
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA25+alpha-ketoglutarate+O2-&gt;GA13+succinate+CO2" />
+        <attribute name="name" value="RXN-6541" />
+        <attribute name="name" value="biochemicalReaction87010" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1147476" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1120542" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1120759" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1120759" />
+        <attribute name="_displayName" value="GA25+alpha-ketoglutarate+O2-&gt;GA13+succinate+CO2" />
+        <attribute name="input" class="SimpleEntity" referTo="1131251" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="revised" class="InstanceEdit" referTo="-3" />
+        <attribute name="output" class="SimpleEntity" referTo="1132119" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
+    </Reaction>
+    <Species>
+      <instance DB_ID="186860" displayName="Oryza sativa" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="186860" />
+        <attribute name="superTaxon" class="Taxon" referTo="186856" />
+        <attribute name="created" class="InstanceEdit" referTo="186845" />
+        <attribute name="name" value="Oryza sativa" />
+        <attribute name="name" value="rice" />
+        <attribute name="_displayName" value="Oryza sativa" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="186858" />
+      </instance>
+      <instance DB_ID="-1" displayName="Oryza sativa subsp. japonica" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-1" />
+        <attribute name="name" value="Oryza sativa subsp. japonica" />
+        <attribute name="_displayName" value="Oryza sativa subsp. japonica" />
+      </instance>
+    </Species>
+    <ReferenceMolecule>
+      <instance DB_ID="1163031" displayName="gibberellin A24 [ChEBI:32906]" isShell="true" />
+      <instance DB_ID="114753" displayName="Succinate [ChEBI:15741]" isShell="true" />
+      <instance DB_ID="1162909" displayName="gibberellin A12 [ChEBI:30088]" isShell="true" />
+      <instance DB_ID="1164217" displayName="gibberellin A37 [ChEBI:29596]" isShell="true" />
+      <instance DB_ID="114728" displayName="H2O [ChEBI:15377]" isShell="true" />
+      <instance DB_ID="1163622" displayName="gibberellin A36 [ChEBI:29595]" isShell="true" />
+      <instance DB_ID="1163840" displayName="gibberellin A15 [ChEBI:29590]" isShell="true" />
+      <instance DB_ID="114744" displayName="2-Oxoglutarate [ChEBI:30915]" isShell="true" />
+      <instance DB_ID="1164349" displayName="GA13 [unknown:unknown]" isShell="true" />
+      <instance DB_ID="114734" displayName="Oxygen [ChEBI:15379]" isShell="true" />
+      <instance DB_ID="1164056" displayName="GA25 [unknown:unknown]" isShell="true" />
+      <instance DB_ID="1163242" displayName="gibberellin A9 [ChEBI:29605]" isShell="true" />
+      <instance DB_ID="114738" displayName="CO2 [ChEBI:16526]" isShell="true" />
+      <instance DB_ID="1164651" displayName="gibberellin A4 [ChEBI:32902]" isShell="true" />
+    </ReferenceMolecule>
+    <InstanceEdit>
+      <instance DB_ID="1301009" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="396309" displayName="Kanapin, EE, 2009-03-09 13:26:57" isShell="true" />
+      <instance DB_ID="937668" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1164949" displayName="Wu, G, 2010-12-10" isShell="false" isDirty="false">
+        <attribute name="author" class="Person" referTo="1112777" />
+        <attribute name="DB_ID" value="1164949" />
+        <attribute name="dateTime" value="2010-12-10 23:21:41.0" />
+        <attribute name="_displayName" value="Wu, G, 2010-12-10" />
+      </instance>
+      <instance DB_ID="436347" displayName="Kanapin, EE" isShell="true" />
+      <instance DB_ID="2266118" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1169175" displayName="D'Eustachio, P, 2011-01-12" isShell="true" />
+      <instance DB_ID="186845" displayName="D'Eustachio, P, 2006-08-28 17:20:12" isShell="true" />
+      <instance DB_ID="2266147" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="160533" displayName="Schmidt, EE, 2005-03-23 05:24:35" isShell="true" />
+      <instance DB_ID="1996004" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1552540" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1173252" displayName="D'Eustachio, P, 2011-01-21" isShell="true" />
+      <instance DB_ID="526073" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="376438" displayName="Kanapin, EE, 2008-09-08 10:23:04" isShell="true" />
+      <instance DB_ID="383393" displayName="Kanapin, AA, 2008-11-26 13:49:44" isShell="true" />
+      <instance DB_ID="162607" displayName="Schmidt, EE, 2005-04-01 11:06:09" isShell="true" />
+      <instance DB_ID="386933" displayName="Mahajan, SS, 2008-11-27 13:16:57" isShell="true" />
+      <instance DB_ID="2133145" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1042299" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="258122" displayName="Kanapin, EE, 2008-03-27 12:15:20" isShell="true" />
+      <instance DB_ID="797782" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="171322" displayName="Schmidt, EE, 2006-02-06 10:50:16" isShell="true" />
+      <instance DB_ID="2454362" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="447572" displayName="Kanapin, EE" isShell="true" />
+      <instance DB_ID="422569" displayName="Kanapin, EE" isShell="true" />
+      <instance DB_ID="2395859" displayName="Jassal, B, 2012-07-03" isShell="true" />
+      <instance DB_ID="1301023" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="615500" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="2455542" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="2132408" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1169158" displayName="D'Eustachio, P, 2011-01-12" isShell="true" />
+      <instance DB_ID="357819" displayName="Kanapin, EE, 2008-06-18 10:45:39" isShell="true" />
+      <instance DB_ID="528085" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="1220942" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1173233" displayName="D'Eustachio, P, 2011-01-21" isShell="true" />
+      <instance DB_ID="-3" displayName="Naithani, sushma, 2012-10-05" isShell="false" isDirty="true">
+        <attribute name="author" class="Person" referTo="-4" />
+        <attribute name="DB_ID" value="-3" />
+        <attribute name="dateTime" value="20121005231704" />
+        <attribute name="_displayName" value="Naithani, sushma, 2012-10-05" />
+      </instance>
+      <instance DB_ID="423222" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="448165" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="938674" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1043152" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1221553" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1301626" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1552982" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1996190" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2133759" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2133760" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2133761" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2266115" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2266117" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2267216" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2455544" displayName="Yung, CK" isShell="true" />
+    </InstanceEdit>
+    <ReferenceDatabase>
+      <instance DB_ID="1" displayName="GO" isShell="true" />
+      <instance DB_ID="1118109" displayName="RiceCyc" isShell="true" />
+      <instance DB_ID="4" displayName="EC" isShell="true" />
+      <instance DB_ID="2" displayName="UniProt" isShell="true" />
+    </ReferenceDatabase>
+    <Compartment>
+      <instance DB_ID="459" displayName="cytoplasm" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="459" />
+        <attribute name="definition" value="All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="258148" />
+        <attribute name="_displayName" value="cytoplasm" />
+        <attribute name="modified" class="InstanceEdit" referTo="160533" />
+        <attribute name="modified" class="InstanceEdit" referTo="162607" />
+        <attribute name="modified" class="InstanceEdit" referTo="171322" />
+        <attribute name="modified" class="InstanceEdit" referTo="258122" />
+        <attribute name="modified" class="InstanceEdit" referTo="357819" />
+        <attribute name="modified" class="InstanceEdit" referTo="376438" />
+        <attribute name="modified" class="InstanceEdit" referTo="383393" />
+        <attribute name="modified" class="InstanceEdit" referTo="386933" />
+        <attribute name="modified" class="InstanceEdit" referTo="396309" />
+        <attribute name="modified" class="InstanceEdit" referTo="422569" />
+        <attribute name="modified" class="InstanceEdit" referTo="436347" />
+        <attribute name="modified" class="InstanceEdit" referTo="447572" />
+        <attribute name="modified" class="InstanceEdit" referTo="526073" />
+        <attribute name="modified" class="InstanceEdit" referTo="528085" />
+        <attribute name="modified" class="InstanceEdit" referTo="615500" />
+        <attribute name="modified" class="InstanceEdit" referTo="797782" />
+        <attribute name="modified" class="InstanceEdit" referTo="937668" />
+        <attribute name="modified" class="InstanceEdit" referTo="1042299" />
+        <attribute name="modified" class="InstanceEdit" referTo="1220942" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301009" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301023" />
+        <attribute name="modified" class="InstanceEdit" referTo="1552540" />
+        <attribute name="modified" class="InstanceEdit" referTo="1996004" />
+        <attribute name="modified" class="InstanceEdit" referTo="2132408" />
+        <attribute name="modified" class="InstanceEdit" referTo="2133145" />
+        <attribute name="modified" class="InstanceEdit" referTo="2266118" />
+        <attribute name="modified" class="InstanceEdit" referTo="2266147" />
+        <attribute name="modified" class="InstanceEdit" referTo="2454362" />
+        <attribute name="modified" class="InstanceEdit" referTo="2455542" />
+        <attribute name="name" value="cytoplasm" />
+        <attribute name="accession" value="0005737" />
+      </instance>
+    </Compartment>
+    <ReferenceGeneProduct>
+      <instance DB_ID="1159425" displayName="UniProt:Q5SND7 LOC_Os01G09300" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1159425" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Iron" />
+        <attribute name="keyword" value="Oxidoreductase" />
+        <attribute name="_displayName" value="UniProt:Q5SND7 LOC_Os01G09300" />
+        <attribute name="secondaryIdentifier" value="Q5SND7_ORYSJ" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="geneName" value="LOC_Os01G09300" />
+        <attribute name="geneName" value="P0512G09.18" />
+        <attribute name="geneName" value="P0695A04.27" />
+        <attribute name="name" value="oxidoreductase, putative, expressed//oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors//isopenicillin-N synthase//gibberellin 20-oxidase" />
+        <attribute name="name" value="protein82292" />
+        <attribute name="comment" value="There is no direct association of LOC_Os01G09300.1 with this uniprot id &quot;Q5SND7&quot;. Palitha Dharmawardha associated these with each other based on blast search. (added by Sushma Naithani, OCT-05-2012)" />
+        <attribute name="identifier" value="Q5SND7" />
+      </instance>
+      <instance DB_ID="1157441" displayName="UniProt:Q8LGZ9 LOC_OS07G01340" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1157441" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Iron" />
+        <attribute name="keyword" value="Oxidoreductase" />
+        <attribute name="_displayName" value="UniProt:Q8LGZ9 LOC_OS07G01340" />
+        <attribute name="secondaryIdentifier" value="Q8LGZ9_ORYSJ" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="description" value="gibberellin 20-oxidase, catalyzes conversion of GA12 to GA15. 341 a.a. long protein. (added by Sushma Naithani)" />
+        <attribute name="geneName" value="LOC_OS07G01340" />
+        <attribute name="geneName" value="P0446F04.116" />
+        <attribute name="geneName" value="Os07g0103500" />
+        <attribute name="name" value="gibberellin 2-beta-dioxygenase 7, putative, expressed" />
+        <attribute name="name" value="protein86630" />
+        <attribute name="comment" value="gibberellin 20-oxidase, catalyzes conversion of GA12 to GA15. (Sushma Naithani, OCT-05-2012)" />
+        <attribute name="identifier" value="Q8LGZ9" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1147134" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1139522" />
+      </instance>
+    </ReferenceGeneProduct>
+    <DefinedSet>
+      <instance DB_ID="1121727" displayName="gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1)" />
+        <attribute name="name" value="phys-ent-participant86637" />
+        <attribute name="DB_ID" value="1121727" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="_displayName" value="gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" />
+        <attribute name="hasMember" class="EntityWithAccessionedSequence" referTo="1128069" />
+        <attribute name="hasMember" class="EntityWithAccessionedSequence" referTo="1122541" />
+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
+      </instance>
+    </DefinedSet>
+    <CatalystActivity>
+      <instance DB_ID="1119172" displayName="oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen of gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1119172" />
+        <attribute name="physicalEntity" class="DefinedSet" referTo="1121727" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen of gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" />
+        <attribute name="activity" class="GO_MolecularFunction" referTo="724" />
+      </instance>
+      <instance DB_ID="1118824" displayName="oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen of gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118824" />
+        <attribute name="physicalEntity" class="DefinedSet" referTo="1121727" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen of gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" />
+        <attribute name="activity" class="GO_MolecularFunction" referTo="724" />
+      </instance>
+      <instance DB_ID="1118740" displayName="oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen of gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118740" />
+        <attribute name="physicalEntity" class="DefinedSet" referTo="1121727" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="_displayName" value="oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen of gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" />
+        <attribute name="activity" class="GO_MolecularFunction" referTo="724" />
+      </instance>
+      <instance DB_ID="1118641" displayName="oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors of gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1) [cytosol]" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1118641" />
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+

diff --git a/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis I(non C-13 hydroxylation)1sn.rtpj b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis I(non C-13 hydroxylation)1sn.rtpj
new file mode 100644 (file)
index 0000000..3881647
--- /dev/null
+++ b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis I(non C-13 hydroxylation)1sn.rtpj
@@ -0,0 +1,1857 @@
+<?xml version="1.0" encoding="UTF-8"?>
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+    </ReferenceGeneProduct>
+    <Compartment>
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+        <attribute name="definition" value="All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="258148" />
+        <attribute name="_displayName" value="cytoplasm" />
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+        <attribute name="name" value="cytoplasm" />
+        <attribute name="accession" value="0005737" />
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+    </Compartment>
+    <ReferenceDatabase>
+      <instance DB_ID="1" displayName="GO" isShell="true" />
+      <instance DB_ID="1118109" displayName="RiceCyc" isShell="true" />
+      <instance DB_ID="4" displayName="EC" isShell="true" />
+    </ReferenceDatabase>
+    <ReferenceMolecule>
+      <instance DB_ID="1163031" displayName="gibberellin A24 [ChEBI:32906]" isShell="true" />
+      <instance DB_ID="114753" displayName="Succinate [ChEBI:15741]" isShell="true" />
+      <instance DB_ID="1162909" displayName="gibberellin A12 [ChEBI:30088]" isShell="true" />
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+      <instance DB_ID="114728" displayName="H2O [ChEBI:15377]" isShell="true" />
+      <instance DB_ID="1163622" displayName="gibberellin A36 [ChEBI:29595]" isShell="true" />
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+      <instance DB_ID="114744" displayName="2-Oxoglutarate [ChEBI:30915]" isShell="true" />
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+      <instance DB_ID="114734" displayName="Oxygen [ChEBI:15379]" isShell="true" />
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+      <instance DB_ID="1163242" displayName="gibberellin A9 [ChEBI:29605]" isShell="true" />
+      <instance DB_ID="114738" displayName="CO2 [ChEBI:16526]" isShell="true" />
+      <instance DB_ID="1164651" displayName="gibberellin A4 [ChEBI:32902]" isShell="true" />
+    </ReferenceMolecule>
+    <Summation>
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+        <attribute name="text" value="Data source: RiceCyc" />
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+        <attribute name="modified" class="InstanceEdit" referTo="1169175" />
+      </instance>
+    </Summation>
+    <Species>
+      <instance DB_ID="186860" displayName="Oryza sativa" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="186860" />
+        <attribute name="superTaxon" class="Taxon" referTo="186856" />
+        <attribute name="created" class="InstanceEdit" referTo="186845" />
+        <attribute name="name" value="Oryza sativa" />
+        <attribute name="name" value="rice" />
+        <attribute name="_displayName" value="Oryza sativa" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="186858" />
+      </instance>
+    </Species>
+  </reactome>
+</rtpj>
+

diff --git a/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis II (early C-3 hydroxylation-Curatedsn).rtpj b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis II (early C-3 hydroxylation-Curatedsn).rtpj
new file mode 100644 (file)
index 0000000..dabcf57
--- /dev/null
+++ b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis II (early C-3 hydroxylation-Curatedsn).rtpj
@@ -0,0 +1,2190 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<rtpj>
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+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
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diff --git a/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis II (early C-3 hydroxylation-Orisn).rtpj b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis II (early C-3 hydroxylation-Orisn).rtpj
new file mode 100644 (file)
index 0000000..1a25dbc
--- /dev/null
+++ b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis II (early C-3 hydroxylation-Orisn).rtpj
@@ -0,0 +1,1764 @@
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+        <attribute name="name" value="GA37" />
+        <attribute name="name" value="phys-ent-participant86956" />
+        <attribute name="name" value="phys-ent-participant87045" />
+        <attribute name="name" value="phys-ent-participant86935" />
+        <attribute name="DB_ID" value="1130960" />
+        <attribute name="referenceEntity" class="ReferenceMolecule" referTo="1164217" />
+        <attribute name="_displayName" value="GA37 [cytoplasm]" />
+        <attribute name="compartment" class="Compartment" referTo="459" />
+      </instance>
+    </SimpleEntity>
+    <ReferenceGeneProduct>
+      <instance DB_ID="1159425" displayName="RiceCyc:LOC_OS01G09300.1 oxidoreductase, putative, expressed//oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors//isopenicillin-N synthase//gibberellin 20-oxidase" isShell="true" />
+      <instance DB_ID="1157441" displayName="RiceCyc:LOC_OS07G01340.1 gibberellin 2-beta-dioxygenase 7, putative, expressed" isShell="true" />
+    </ReferenceGeneProduct>
+    <InstanceEdit>
+      <instance DB_ID="447572" displayName="Kanapin, EE" isShell="true" />
+      <instance DB_ID="526073" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="386933" displayName="Mahajan, SS, 2008-11-27 13:16:57" isShell="true" />
+      <instance DB_ID="2455542" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="797782" displayName="Kanapin, AA" isShell="true" />
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+      <instance DB_ID="1173233" displayName="D'Eustachio, P, 2011-01-21" isShell="true" />
+      <instance DB_ID="383393" displayName="Kanapin, AA, 2008-11-26 13:49:44" isShell="true" />
+      <instance DB_ID="436347" displayName="Kanapin, EE" isShell="true" />
+      <instance DB_ID="396309" displayName="Kanapin, EE, 2009-03-09 13:26:57" isShell="true" />
+      <instance DB_ID="186845" displayName="D'Eustachio, P, 2006-08-28 17:20:12" isShell="true" />
+      <instance DB_ID="258122" displayName="Kanapin, EE, 2008-03-27 12:15:20" isShell="true" />
+      <instance DB_ID="422569" displayName="Kanapin, EE" isShell="true" />
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+      <instance DB_ID="2266118" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="357819" displayName="Kanapin, EE, 2008-06-18 10:45:39" isShell="true" />
+      <instance DB_ID="528085" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="1169175" displayName="D'Eustachio, P, 2011-01-12" isShell="true" />
+      <instance DB_ID="160533" displayName="Schmidt, EE, 2005-03-23 05:24:35" isShell="true" />
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+      <instance DB_ID="1169158" displayName="D'Eustachio, P, 2011-01-12" isShell="true" />
+      <instance DB_ID="1552540" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2266147" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1220942" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1301009" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="937668" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="1996004" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="615500" displayName="Kanapin, AA" isShell="true" />
+      <instance DB_ID="2395859" displayName="Jassal, B, 2012-07-03" isShell="true" />
+      <instance DB_ID="2132408" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1042299" displayName="Yung, CK" isShell="true" />
+      <instance DB_ID="2454362" displayName="Weiser, JD" isShell="true" />
+      <instance DB_ID="1164949" displayName="Wu, G, 2010-12-10" isShell="false" isDirty="false">
+        <attribute name="author" class="Person" referTo="1112777" />
+        <attribute name="DB_ID" value="1164949" />
+        <attribute name="dateTime" value="2010-12-10 23:21:41.0" />
+        <attribute name="_displayName" value="Wu, G, 2010-12-10" />
+      </instance>
+      <instance DB_ID="376438" displayName="Kanapin, EE, 2008-09-08 10:23:04" isShell="true" />
+    </InstanceEdit>
+    <Pathway>
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+        <attribute name="summation" class="Summation" referTo="1119236" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="gibberellin biosynthesis II (early C-3 hydroxylation)" />
+        <attribute name="name" value="pathway100986" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120022" />
+        <attribute name="hasEvent" class="Reaction" referTo="1119881" />
+        <attribute name="hasEvent" class="Reaction" referTo="1121181" />
+        <attribute name="hasEvent" class="Reaction" referTo="1121007" />
+        <attribute name="hasEvent" class="Reaction" referTo="1119938" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1144572" />
+        <attribute name="DB_ID" value="1119377" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="_displayName" value="gibberellin biosynthesis II (early C-3 hydroxylation)" />
+      </instance>
+    </Pathway>
+    <Reaction>
+      <instance DB_ID="1119881" displayName="GA14+O2+alpha-ketoglutarate-&gt;GA37+CO2+succinate" isShell="false" isDirty="false">
+        <attribute name="catalystActivity" class="CatalystActivity" referTo="1118355" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA14+O2+alpha-ketoglutarate-&gt;GA37+CO2+succinate" />
+        <attribute name="name" value="RXN-7589" />
+        <attribute name="name" value="biochemicalReaction86948" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1152437" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1119881" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1120022" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1120022" />
+        <attribute name="_displayName" value="GA14+O2+alpha-ketoglutarate-&gt;GA37+CO2+succinate" />
+        <attribute name="input" class="SimpleEntity" referTo="1130934" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="output" class="SimpleEntity" referTo="1130960" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="compartment" class="Compartment" referTo="459" />
+      </instance>
+      <instance DB_ID="1120022" displayName="GA12+alpha-ketoglutarate+O2-&gt;GA14+succinate+CO2" isShell="false" isDirty="false">
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA12+alpha-ketoglutarate+O2-&gt;GA14+succinate+CO2" />
+        <attribute name="name" value="RXN-6544" />
+        <attribute name="name" value="biochemicalReaction87002" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1152490" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1120022" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="_displayName" value="GA12+alpha-ketoglutarate+O2-&gt;GA14+succinate+CO2" />
+        <attribute name="input" class="SimpleEntity" referTo="1132279" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="output" class="SimpleEntity" referTo="1130934" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="compartment" class="Compartment" referTo="459" />
+      </instance>
+      <instance DB_ID="1119938" displayName="GA36+O2+alpha-ketoglutarate-&gt;GA4+succinate+CO2" isShell="false" isDirty="false">
+        <attribute name="catalystActivity" class="CatalystActivity" referTo="1118755" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA36+O2+alpha-ketoglutarate-&gt;GA4+succinate+CO2" />
+        <attribute name="name" value="RXN-7591" />
+        <attribute name="name" value="biochemicalReaction86913" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1145778" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1119938" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1121007" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1121007" />
+        <attribute name="_displayName" value="GA36+O2+alpha-ketoglutarate-&gt;GA4+succinate+CO2" />
+        <attribute name="input" class="SimpleEntity" referTo="1132169" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="output" class="SimpleEntity" referTo="1130812" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="compartment" class="Compartment" referTo="459" />
+      </instance>
+      <instance DB_ID="1121418" displayName="GA12+O2+alpha-ketoglutarate-&gt;GA15+CO2+succinate" isShell="false" isDirty="false">
+        <attribute name="catalystActivity" class="CatalystActivity" referTo="1118740" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA12+O2+alpha-ketoglutarate-&gt;GA15+CO2+succinate" />
+        <attribute name="name" value="RXN1F-162" />
+        <attribute name="name" value="biochemicalReaction86809" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1147837" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1121418" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1121181" />
+        <attribute name="_displayName" value="GA12+O2+alpha-ketoglutarate-&gt;GA15+CO2+succinate" />
+        <attribute name="input" class="SimpleEntity" referTo="1132279" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="output" class="SimpleEntity" referTo="1131412" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="compartment" class="Compartment" referTo="459" />
+      </instance>
+      <instance DB_ID="1121181" displayName="GA15+alpha-ketoglutarate+O2-&gt;GA37+succinate+CO2" isShell="false" isDirty="false">
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA15+alpha-ketoglutarate+O2-&gt;GA37+succinate+CO2" />
+        <attribute name="name" value="RXN-6522" />
+        <attribute name="name" value="biochemicalReaction87040" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1134335" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1121181" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1121418" />
+        <attribute name="_displayName" value="GA15+alpha-ketoglutarate+O2-&gt;GA37+succinate+CO2" />
+        <attribute name="input" class="SimpleEntity" referTo="1131412" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="output" class="SimpleEntity" referTo="1130960" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="compartment" class="Compartment" referTo="459" />
+      </instance>
+      <instance DB_ID="1121007" displayName="GA37+alpha-ketoglutarate+O2-&gt;GA36+succinate+CO2+H2O" isShell="false" isDirty="false">
+        <attribute name="catalystActivity" class="CatalystActivity" referTo="1118340" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="GA37+alpha-ketoglutarate+O2-&gt;GA36+succinate+CO2+H2O" />
+        <attribute name="name" value="RXN-7590" />
+        <attribute name="name" value="biochemicalReaction86930" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1140995" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
+        <attribute name="DB_ID" value="1121007" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1121181" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1119881" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1121181" />
+        <attribute name="precedingEvent" class="Reaction" referTo="1119881" />
+        <attribute name="_displayName" value="GA37+alpha-ketoglutarate+O2-&gt;GA36+succinate+CO2+H2O" />
+        <attribute name="input" class="SimpleEntity" referTo="1130960" />
+        <attribute name="input" class="SimpleEntity" referTo="1130662" />
+        <attribute name="input" class="SimpleEntity" referTo="1131511" />
+        <attribute name="output" class="SimpleEntity" referTo="1132169" />
+        <attribute name="output" class="SimpleEntity" referTo="1132339" />
+        <attribute name="output" class="SimpleEntity" referTo="1132345" />
+        <attribute name="output" class="SimpleEntity" referTo="1131965" />
+        <attribute name="compartment" class="Compartment" referTo="459" />
+      </instance>
+    </Reaction>
+    <Species>
+      <instance DB_ID="186860" displayName="Oryza sativa" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="186860" />
+        <attribute name="superTaxon" class="Taxon" referTo="186856" />
+        <attribute name="created" class="InstanceEdit" referTo="186845" />
+        <attribute name="name" value="Oryza sativa" />
+        <attribute name="name" value="rice" />
+        <attribute name="_displayName" value="Oryza sativa" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="186858" />
+      </instance>
+    </Species>
+    <DatabaseIdentifier>
+      <instance DB_ID="186858" displayName="NCBI_taxonomy:4530" isShell="true" />
+      <instance DB_ID="1144572" displayName="RiceCyc:PWY-5036" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="1144572" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1118109" />
+        <attribute name="identifier" value="PWY-5036" />
+        <attribute name="_displayName" value="RiceCyc:PWY-5036" />
+      </instance>
+      <instance DB_ID="1145778" displayName="RiceCyc:RXN-7591" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="1145778" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1118109" />
+        <attribute name="identifier" value="RXN-7591" />
+        <attribute name="_displayName" value="RiceCyc:RXN-7591" />
+      </instance>
+      <instance DB_ID="1152437" displayName="RiceCyc:RXN-7589" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="1152437" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1118109" />
+        <attribute name="identifier" value="RXN-7589" />
+        <attribute name="_displayName" value="RiceCyc:RXN-7589" />
+      </instance>
+      <instance DB_ID="1147837" displayName="RiceCyc:RXN1F-162" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="1147837" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1118109" />
+        <attribute name="identifier" value="RXN1F-162" />
+        <attribute name="_displayName" value="RiceCyc:RXN1F-162" />
+      </instance>
+      <instance DB_ID="1134335" displayName="RiceCyc:RXN-6522" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="1134335" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1118109" />
+        <attribute name="identifier" value="RXN-6522" />
+        <attribute name="_displayName" value="RiceCyc:RXN-6522" />
+      </instance>
+      <instance DB_ID="1152490" displayName="RiceCyc:RXN-6544" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="1152490" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1118109" />
+        <attribute name="identifier" value="RXN-6544" />
+        <attribute name="_displayName" value="RiceCyc:RXN-6544" />
+      </instance>
+      <instance DB_ID="71828" displayName="EC:1.14.11.-" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="71828" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="4" />
+        <attribute name="_Protege_id" value="metabolic_pathways_CSHL_02778" />
+        <attribute name="identifier" value="1.14.11.-" />
+        <attribute name="_displayName" value="EC:1.14.11.-" />
+      </instance>
+      <instance DB_ID="1140995" displayName="RiceCyc:RXN-7590" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="1140995" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1118109" />
+        <attribute name="identifier" value="RXN-7590" />
+        <attribute name="_displayName" value="RiceCyc:RXN-7590" />
+      </instance>
+    </DatabaseIdentifier>
+  </reactome>
+</rtpj>
+

diff --git a/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis III (early C-13 hydroxylation)curatedsn.rtpj b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis III (early C-13 hydroxylation)curatedsn.rtpj
new file mode 100644 (file)
index 0000000..31e0480
--- /dev/null
+++ b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis III (early C-13 hydroxylation)curatedsn.rtpj
@@ -0,0 +1,2677 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<rtpj>
+  <reactome>
+    <Person>
+      <instance DB_ID="1112777" displayName="Wu, G" isShell="true" />
+    </Person>
+    <Pathway>
+      <instance DB_ID="1119294" displayName="gibberellin biosynthesis III (early C-13 hydroxylation)" isShell="false" isDirty="false">
+        <attribute name="summation" class="Summation" referTo="1119236" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="gibberellin biosynthesis III (early C-13 hydroxylation)" />
+        <attribute name="name" value="pathway100993" />
+        <attribute name="hasEvent" class="Reaction" referTo="1121499" />
+        <attribute name="hasEvent" class="Reaction" referTo="1119697" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120898" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120790" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120398" />
+        <attribute name="hasEvent" class="Reaction" referTo="1119676" />
+        <attribute name="hasEvent" class="Reaction" referTo="1120250" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1139424" />
+        <attribute name="DB_ID" value="1119294" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="_displayName" value="gibberellin biosynthesis III (early C-13 hydroxylation)" />
+      </instance>
+    </Pathway>
+    <ReferenceDatabase>
+      <instance DB_ID="1118109" displayName="RiceCyc" isShell="true" />
+      <instance DB_ID="4" displayName="EC" isShell="true" />
+      <instance DB_ID="1" displayName="GO" isShell="true" />
+      <instance DB_ID="2" displayName="UniProt" isShell="true" />
+    </ReferenceDatabase>
+    <Compartment>
+      <instance DB_ID="459" displayName="cytoplasm" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="459" />
+        <attribute name="definition" value="All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="258148" />
+        <attribute name="_displayName" value="cytoplasm" />
+        <attribute name="modified" class="InstanceEdit" referTo="160533" />
+        <attribute name="modified" class="InstanceEdit" referTo="162607" />
+        <attribute name="modified" class="InstanceEdit" referTo="171322" />
+        <attribute name="modified" class="InstanceEdit" referTo="258122" />
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+        <attribute name="modified" class="InstanceEdit" referTo="422569" />
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+        <attribute name="modified" class="InstanceEdit" referTo="447572" />
+        <attribute name="modified" class="InstanceEdit" referTo="526073" />
+        <attribute name="modified" class="InstanceEdit" referTo="528085" />
+        <attribute name="modified" class="InstanceEdit" referTo="615500" />
+        <attribute name="modified" class="InstanceEdit" referTo="797782" />
+        <attribute name="modified" class="InstanceEdit" referTo="937668" />
+        <attribute name="modified" class="InstanceEdit" referTo="1042299" />
+        <attribute name="modified" class="InstanceEdit" referTo="1220942" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301009" />
+        <attribute name="modified" class="InstanceEdit" referTo="1301023" />
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+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Oxidoreductase" />
+        <attribute name="keyword" value="Polymorphism" />
+        <attribute name="_displayName" value="UniProt:QOJH50 LOC_Os01g66100" />
+        <attribute name="secondaryIdentifier" value="GAOX2_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="Q0JH50" />
+        <attribute name="secondaryIdentifier" value="Q6YLX3" />
+        <attribute name="secondaryIdentifier" value="Q7EC22" />
+        <attribute name="secondaryIdentifier" value="Q7GBH4" />
+        <attribute name="secondaryIdentifier" value="Q8RVF5" />
+        <attribute name="secondaryIdentifier" value="Q8S492" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="geneName" value="LOC_Os01g66100" />
+        <attribute name="geneName" value="20ox2" />
+        <attribute name="geneName" value="C20ox2" />
+        <attribute name="geneName" value="GA20" />
+        <attribute name="geneName" value="Sd-1" />
+        <attribute name="geneName" value="Os01g0883800" />
+        <attribute name="geneName" value="B1065E10.46" />
+        <attribute name="name" value="gibberellin 20 oxidase 2, putative, expressed//unidimensional cell growth//gibberellin metabolic process//gibberellin 20-oxidase activity//response to abiotic stimulus//gibberellin biosynthetic process//gibberellin 20-oxidase" />
+        <attribute name="name" value="protein86698" />
+        <attribute name="comment" value="FUNCTION: Key oxidase enzyme in the biosynthesis of gibberellin that catalyzes the conversion of GA53 to GA20 via a three-step oxidation at C-20 of the GA skeleton." />
+        <attribute name="comment" value="COFACTOR: Iron." />
+        <attribute name="comment" value="COFACTOR: Ascorbate." />
+        <attribute name="comment" value="COFACTOR: 2-oxoglutarate." />
+        <attribute name="comment" value="TISSUE SPECIFICITY: Strongly expressed in leaf blades, stems and unopened flowers. Lower expression in leaf sheath, rachis, shoot apex and roots." />
+        <attribute name="comment" value="DEVELOPMENTAL STAGE: Expressed within 48 hours after sowing, as well as in 10-day-old plants and flowering panicles." />
+        <attribute name="comment" value="POLYMORPHISM: Sd-1 is the major semidwarfing allele extensively used in modern rice cultivars." />
+        <attribute name="comment" value="BIOTECHNOLOGY: This gene, also known as the 'green revolution gene' has been introduced by conventional breeding procedures into several cultivars. It provides rice cultivars with short, thick culms, raises the harvest index, improves lodging resistance and responsiveness to nitrogen fertilizer, resulting high yields without affecting panicle and grain quality." />
+        <attribute name="comment" value="MISCELLANEOUS: A second gene, 20ox1, is preferentially expressed in the reproductive organs and enables the flowers in sd1 plants to develop and be fertilized normally." />
+        <attribute name="comment" value="SIMILARITY: Belongs to the iron/ascorbate-dependent oxidoreductase family. GA20OX subfamily." />
+        <attribute name="identifier" value="QOJH50" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1153669" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1151742" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1149577" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1152993" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1143785" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1144503" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1152442" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1145099" />
+      </instance>
+      <instance DB_ID="1155258" displayName="UniProt:P93771 LOC_Os03g63970" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1155258" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Iron" />
+        <attribute name="keyword" value="Metal-binding" />
+        <attribute name="keyword" value="Oxidoreductase" />
+        <attribute name="_displayName" value="UniProt:P93771 LOC_Os03g63970" />
+        <attribute name="secondaryIdentifier" value="GAOX1_ORYSJ" />
+        <attribute name="secondaryIdentifier" value="Q84M83" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="geneName" value="LOC_Os03g63970" />
+        <attribute name="geneName" value="20ox1" />
+        <attribute name="geneName" value="GA20ox-1" />
+        <attribute name="geneName" value="Os03g0856700" />
+        <attribute name="geneName" value="OSJNBa0059G06.22" />
+        <attribute name="name" value="gibberellin 20 oxidase 1, putative, expressed//gibberellin metabolic process//gibberellin 20-oxidase" />
+        <attribute name="name" value="protein86678" />
+        <attribute name="comment" value="FUNCTION: Key oxidase enzyme in the biosynthesis of gibberellin that catalyzes the conversion of GA12 and GA53 to GA9 and GA20 respectively, via a three-step oxidation at C-20 of the GA skeleton." />
+        <attribute name="comment" value="COFACTOR: Iron." />
+        <attribute name="comment" value="COFACTOR: Ascorbate." />
+        <attribute name="comment" value="COFACTOR: 2-oxoglutarate." />
+        <attribute name="comment" value="TISSUE SPECIFICITY: Preferentially expressed in reproductive organs." />
+        <attribute name="comment" value="INDUCTION: Negatively controlled by the level of physiologically active gibberellin." />
+        <attribute name="comment" value="SIMILARITY: Belongs to the iron/ascorbate-dependent oxidoreductase family. GA20OX subfamily." />
+        <attribute name="comment" value="SIMILARITY: Contains 1 Fe2OG dioxygenase domain." />
+        <attribute name="identifier" value="P93771" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1141061" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1133631" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1137163" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1134944" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1132875" />
+      </instance>
+      <instance DB_ID="1160677" displayName="UniProt:Q9FU53 LOC_OS01G08220.1" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1160677" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Iron" />
+        <attribute name="keyword" value="Oxidoreductase" />
+        <attribute name="_displayName" value="UniProt:Q9FU53 LOC_OS01G08220.1" />
+        <attribute name="secondaryIdentifier" value="Q9FU53_ORYSJ" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="geneName" value="LOC_OS01G08220.1" />
+        <attribute name="geneName" value="P0013F10.29" />
+        <attribute name="geneName" value="D18" />
+        <attribute name="geneName" value="OsJ_00594" />
+        <attribute name="name" value="gibberellin 3-beta-dioxygenase 2-2, putative, expressed//gibberellin metabolic process//gibberellin 3-beta-dioxygenase" />
+        <attribute name="name" value="protein86688" />
+        <attribute name="identifier" value="Q9FU53" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1137987" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1140651" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1140040" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1141577" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1140951" />
+      </instance>
+      <instance DB_ID="1161209" displayName="UniProt:Q6AT12 LOC_OS05G08540" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="1161209" />
+        <attribute name="species" class="Species" referTo="-1" />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="2" />
+        <attribute name="keyword" value="Complete proteome" />
+        <attribute name="keyword" value="Iron" />
+        <attribute name="keyword" value="Oxidoreductase" />
+        <attribute name="_displayName" value="UniProt:Q6AT12 LOC_OS05G08540" />
+        <attribute name="secondaryIdentifier" value="Q6AT12_ORYSJ" />
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="geneName" value="LOC_OS05G08540" />
+        <attribute name="geneName" value="OSJNBa0029B02.17" />
+        <attribute name="geneName" value="Os05g0178100" />
+        <attribute name="name" value="gibberellin 3-beta-dioxygenase 2-2, putative, expressed//gibberellin metabolic process//iron ion binding//antibiotic biosynthetic process//gibberellin 3-beta-dioxygenase" />
+        <attribute name="name" value="protein82313" />
+        <attribute name="identifier" value="Q6AT12" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1145592" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1152874" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1152269" />
+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="1143740" />
+      </instance>
+    </ReferenceGeneProduct>
+    <PathwayDiagram>
+      <instance DB_ID="-13" displayName="Diagram of gibberellin biosynthesis III (early C-13 hydroxylation)" isShell="false" isDirty="true">
+        <attribute name="DB_ID" value="-13" />
+        <attribute name="representedPathway" class="Pathway" referTo="1119294" />
+        <attribute name="_displayName" value="Diagram of gibberellin biosynthesis III (early C-13 hydroxylation)" />
+      </instance>
+    </PathwayDiagram>
+    <EntityCompartment>
+      <instance DB_ID="70101" displayName="cytosol" isShell="false" isDirty="false">
+        <attribute name="DB_ID" value="70101" />
+        <attribute name="definition" value="The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes." />
+        <attribute name="referenceDatabase" class="ReferenceDatabase" referTo="1" />
+        <attribute name="instanceOf" class="GO_CellularComponent" referTo="258163" />
+        <attribute name="_displayName" value="cytosol" />
+        <attribute name="modified" class="InstanceEdit" referTo="160533" />
+        <attribute name="modified" class="InstanceEdit" referTo="162607" />
+        <attribute name="modified" class="InstanceEdit" referTo="171322" />
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+        <attribute name="modified" class="InstanceEdit" referTo="357819" />
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+        <attribute name="modified" class="InstanceEdit" referTo="396309" />
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+        <attribute name="modified" class="InstanceEdit" referTo="447572" />
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+        <attribute name="modified" class="InstanceEdit" referTo="528085" />
+        <attribute name="modified" class="InstanceEdit" referTo="615500" />
+        <attribute name="modified" class="InstanceEdit" referTo="797782" />
+        <attribute name="modified" class="InstanceEdit" referTo="937668" />
+        <attribute name="modified" class="InstanceEdit" referTo="1042299" />
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+        <attribute name="modified" class="InstanceEdit" referTo="1301023" />
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+        <attribute name="modified" class="InstanceEdit" referTo="1996004" />
+        <attribute name="modified" class="InstanceEdit" referTo="2132408" />
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+        <attribute name="modified" class="InstanceEdit" referTo="2454362" />
+        <attribute name="modified" class="InstanceEdit" referTo="2455542" />
+        <attribute name="name" value="cytosol" />
+        <attribute name="accession" value="0005829" />
+      </instance>
+    </EntityCompartment>
+    <GO_CellularComponent>
+      <instance DB_ID="258148" displayName="intracellular part" isShell="true" />
+      <instance DB_ID="258163" displayName="cytoplasmic part" isShell="true" />
+    </GO_CellularComponent>
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+        <attribute name="name" value="RXN1F-101" />
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+        <attribute name="crossReference" class="DatabaseIdentifier" referTo="71828" />
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+        <attribute name="species" class="Species" referTo="186860" />
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+        <attribute name="compartment" class="EntityCompartment" referTo="70101" />
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+      <instance DB_ID="1119697" displayName="GA53+O2+alpha-ketoglutarate-&gt;GA44+CO2+succinate" isShell="false" isDirty="true">
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+        <attribute name="name" value="GA44+alpha-ketoglutarate+O2-&gt;GA38+succinate+CO2" />
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+      <instance DB_ID="38289" displayName="Gibberellin 53 [ChEBI:5349]" isShell="true" />
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+      <instance DB_ID="1163054" displayName="gibberellin A17 [ChEBI:24236]" isShell="true" />
+      <instance DB_ID="32625" displayName="Gibberellin 19 [ChEBI:5343]" isShell="true" />
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+      <instance DB_ID="114728" displayName="H2O [ChEBI:15377]" isShell="true" />
+      <instance DB_ID="30857" displayName="Gibberellin 1 [ChEBI:5341]" isShell="true" />
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+        <attribute name="text" value="gibberellin 2-beta-dioxygenase 7, putative, expressed" />
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+      <instance DB_ID="-4" displayName="The deduced protein sequence suggests that the enzyme family..." isShell="false" isDirty="true">
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+        <attribute name="text" value="The deduced protein sequence suggests that the enzyme family GA20ox catalyzes the conversion of GA53 to GA20, thus taking part in the Gibberellic acid biosynthesis pathway. There is no phenotype associated with it, however this bears a very strong homology with the well known rice green revolution gene semidwarf-1 (sd1)." />
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+        <attribute name="text" value="GA12 is oxidized into GA53." />
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+        <attribute name="text" value="GA19 is converted into GA17" />
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+          <Catalyst id="72" points="527 503" />
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+    </Edges>
+    <Pathways />
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+

diff --git a/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis III (early C-13 hydroxylation)orisn.rtpj b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis III (early C-13 hydroxylation)orisn.rtpj
new file mode 100644 (file)
index 0000000..179a10f
--- /dev/null
+++ b/plant_reactome/rice_reactome_curation/sushma/gibberellin biosynthesis III (early C-13 hydroxylation)orisn.rtpj
@@ -0,0 +1,1931 @@
+<?xml version="1.0" encoding="UTF-8"?>
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+  <reactome>
+    <Taxon>
+      <instance DB_ID="186856" displayName="Oryza" isShell="true" />
+    </Taxon>
+    <Person>
+      <instance DB_ID="1112777" displayName="Wu, G" isShell="true" />
+    </Person>
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+      <instance DB_ID="258148" displayName="intracellular part" isShell="true" />
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+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="gibberellin 3-beta-dioxygenase 2-2 (LOC_OS01G08220.1)" />
+        <attribute name="name" value="phys-ent-participant86695" />
+        <attribute name="DB_ID" value="1128079" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="definition" value="Compartment: cellular_component unknown" />
+        <attribute name="referenceEntity" class="ReferenceGeneProduct" referTo="1160677" />
+        <attribute name="_displayName" value="gibberellin 3-beta-dioxygenase 2-2 (LOC_OS01G08220.1)" />
+      </instance>
+      <instance DB_ID="1128440" displayName="gibberellin 20 oxidase 2 (LOC_OS01G66100.1)" isShell="false" isDirty="false">
+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="gibberellin 20 oxidase 2 (LOC_OS01G66100.1)" />
+        <attribute name="name" value="phys-ent-participant86708" />
+        <attribute name="DB_ID" value="1128440" />
+        <attribute name="species" class="Species" referTo="186860" />
+        <attribute name="definition" value="Compartment: cellular_component unknown" />
+        <attribute name="referenceEntity" class="ReferenceGeneProduct" referTo="1156072" />
+        <attribute name="_displayName" value="gibberellin 20 oxidase 2 (LOC_OS01G66100.1)" />
+      </instance>
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+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1)" />
+        <attribute name="name" value="phys-ent-participant86926" />
+        <attribute name="name" value="phys-ent-participant87283" />
+        <attribute name="name" value="phys-ent-participant86759" />
+        <attribute name="name" value="phys-ent-participant86787" />
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+        <attribute name="name" value="phys-ent-participant87297" />
+        <attribute name="name" value="phys-ent-participant86739" />
+        <attribute name="name" value="phys-ent-participant86819" />
+        <attribute name="name" value="phys-ent-participant86634" />
+        <attribute name="DB_ID" value="1128069" />
+        <attribute name="species" class="Species" referTo="186860" />
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+        <attribute name="_displayName" value="gibberellin 2-beta-dioxygenase 7 (LOC_OS07G01340.1)" />
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+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
+        <attribute name="name" value="gibberellin 3-beta-dioxygenase 2-2 (LOC_OS05G08540.1)" />
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+        <attribute name="created" class="InstanceEdit" referTo="1164949" />
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