Rice Gene Index (RGI): a comprehensive pan-genome database for comparative and functional genomics of Asian rice.

Basic Info

Gene ID		OGI # \| Score			Accession \| Assembly \| Annotation			Location		Links
Os01g0736400		OGI:01092750 \| 16/16			Nipponbare \| IRGSP 1.0 \| RAP-db			Chr01:30712401-30717687		Homologues MicroCollinearity RGI-JBrowse RAP-DB Ricevarmap2
Gene Symbol		-
DNA seq		CCTTCTTCCGCGAGCGCCTCCACGGCCTTCGCCCTCGCCACGGCCAGCCTCTCCAGTAGCTTCCCCCCTTCCTCCGACTCCATCACCAGCCTCACCTTCGCCTCCACCTCCTCCGCGCTCACCATCTCCTCGTCGTAGCCATCGATCACCACGCCCACCTTCATCTCCTCCACGATGAACACCTTGTTCATCCTCTGCTCCGCGTACAGCGGCCAGCACAGCAGCGGCACCCCCGCCGTGATCCCCTCCAGCGTCGAGTTCCACCCGCAGTGCGTGACGAACGCGGCCGTCGCCGCGTGGCGTAGCACCTTGGCCTGCGGCGCCCATGACTTGACCACCATTCCTTTGTCCGCCGTCCTCTCCAAGAACCCCTCGGGGAGCAGCGCCGCCAGGTCTGGCTCCGGCAGATGCTCGAGCAGATTGGCCGGATCCTGACGCGGGCTCCGCACCACCCACAGGAACCGGTGGCCGGAGCTCTCGAGCCCGCGCGCTATCTCCTTCAGCTGCGCCGCCGAGAAGGAGCCCATGCTGCCGAAGCAGAGGAACACCACGCTCCGCGCCGGCTGCGCGTCCAGCCACGCGAGGCACGCGTGCCGCACCCCTCCTCCCTCCTCCTCGCCTGACGCCACCAGCGGACCGACGCAGTACACCGGCGGGGTGGGGCGGTCCGGGGAGCAAGCTCCCTCCCGGAGCGCACCCATGGCCCTCGCTTCAAGCCACTCGTACGTGTTGAGCAGCACGCCGCTCGCCTCCATGGCGCGCGCGTACAGCTTGACCCGCGCCTTGTAAAACCGACCCTCTCTGTCCTGCACGAGGGACGGCATGTCCGATGCCGGTATCGGCGGGACGCCGGGGAAACGGAGGAGCGCCTTGCCCATGTCTCTGAGGTTGGTGGTAGTCGTGGAGTAGTGGTGCATCAGGCCTAGGGAGGCGGCAAAGGCGCCCGCGGCCGAGGTGAAGTATATGTAGGCGGGGACGTGGAGCGCCGCCGCGGCGTCGACTGCCTCGGCGCAGAATATGTCGAGGACAAGCGCCGCGACGGAGGGGATCGATCGGAGGAGCGACGCGAGGGAGGGCACCGACCGGCGGAGCACGTCGAGCATGAGCAAGAGGGGGTTCGGATCGGGGTCGGCGCAGGACGGCGGCGGCGGGAGGTGGTGGAAGGTGATGGAGGGGTTGGAGGCGGCGATGCCGGCGATGGTGGGGGATCCCGTGGTGCCCGATCCGGGGGTGGCCGGGACGGCGATGGTGACGTCGAGGCCGCGGGTGAGGAAGAGCTTGGCGAGCTCGACCATGGGGAGCAGGTGACCCGCGCCCATGGCGGCGTATAGCACGACGTTGCGGCTGGGCTTGGACTCCATTAGCTCAGGACTCAGGAGCTCTCACTTTCATCGTCCTTTGGAAGAGAGATCTCAGTTGCGGTGTGGTCACTGGTTGGTCACTTGCCTTGTGATTCTTTCGGCTTCATTAATTCCTTTTTCTTTTCAGGTGGTCTAACTATTTACGTCTTCCAGCTACGAAGGCGGGAACCATTTCCGTCTCCCGGTGACGAAGGCGGGAAATTTGCTGGGTAAGGCTATATTTACTCCGTGTGCGTCCACTTCGGTGTGCGTGACCGCACCATTTGCGTCGCGGCCTCGCCTCGGCTTCTCCGTCCCGCCCGCGCAAGCAGCGCCCGCCTCCTGTTCGACGGAATGGCACAGTGGGACGCGCTCGTGGACGCCGCGCTTGCAAGGCTGGCGTCGAGGAACCTCCTGCGAGCCACGCGTCCCATCGCCCTCGCGCCACCTCCAGCGCCGCCTGAAACCTTCGCCGGCCCTGGCCCATGGGACCGCGCCGCCGTCGAGATCCAGCTCGATCGCGCAACCCTCCACCAATGGCTCGCCGAAGGTACTTGCCAACTGTTTTTTCTTCTACTACTTCCCTGCAGGGATGCATGTCAAAATTCAGCTCCCTTTTCACCCCTTTCTACTACTAATTCCGTGTAACTTAGTATTATTCGTGGGCTCAAGACCTCCAAAAGGCAAATTGCTCATGAATTTACCTCTTCCATCGAAATATAGTTTGTTCATCTTTAATACAGAGATACTCAAGTCTTTTGCGTATTTCCAAGAAAAATATTGGTTTGTTTCGTTGTGAATTTGGGTTTTCAGTGACTTTGCTCATGGCAAAGTTTGGTTTGATTAGGTGGTGAAGCGACTGGCCAAGAAGAGGAGGTGGATGAGAAACTCATTCTATTCTCCGGGAATGATTACATGGGCCTCAGCTCCCATCCGGCAATCCGCAAGGCTGCAGTGAAGGTGTGCTAATTCTGTACCTCTAGCCATCGTTTGGTCTATCGAGTTTCTTGCATACTGCATTACTGTTTGATTTTCTATATTTAAGAAAATAATTTCTGTTTGATTTTACTAACATCATGTCTCTTTGCTAGGCAGCTCAAGAGTACGGCATGGGACCTAGGGGCTCTGCCTTGATATGTGGCTATACTACTTATCACAAATTGGTGGAGGAATCTTTGGCAGAGTTGAAGAAAAAGGAGGTCCAGTATCATATTTTATTTTACGTGAACACCTGTGTTTGCAGAAATTATATGAAGTGACCATCATTTTTTAAGCTATGCATCCTTACTACAGAGTTCTTCTACAGGATTGCCTTCTTTGCCCAACAGGATTTTCTGCCAACATGGCTGTGATGACTGCTCTGGGAAGTGTGAGCTCTATTTTGTCTGTTGGGAGAAAACCTGCAGAGGGTGAGAGAATTGCAGTTTTCTCGGATGCTCTCAACCATGCTTCTATCATTGATGGAATTCGCCTTGTTGAGCGACAGCAAGAAGTAGTAGCATTTGTCTACAAGCACTGTGACATGCATCATCTTGATTTCCTACTGTATGCTTTTCACTTTCCTGCCATAACATACATAAATTAGCAACCAACTGATTTATCTATTAACCATATCAATGAATACATGTGCAGGTCCAGTTGCTCAATTGAAAAGAAAGTTGTTGTCACAGATAGGCAAGTAACGTTTCCAAGTAAATTGACTTGTCTGCATGTGCATAGTATCAGAGTATCAAATTCTGAACTCTGAAGCTAATTTTTGTTGATAAAAAATGCAGCCTGTTTAGCATGGATGGTGATTTTGCTCCATTACCAGAACTTGTCAAATTACGCAGAAAGTATGGGTTTTTGTTGGTCATCGACGATGTTAGTATTTTATCTCCTCTCAAGTAGATTTTTATAGGCCTTGATAGTGATCAAGTTATATTGCAATTTTTGTTTTGAAGGCACATGGAACACTTGTTTGTGGCGAGAATGGTGGTGGTGCACCCGAGCTGTTTGGATGCGAAAATGACATTGACATAAGCGTTGGTACCCTAAGTAAGGCTGCTGGCTGCCAGGGTGGTTTTATAGTTTGCAGGTAATCTATTATCATGCCATATCCATATTATATACCAAGGAAAGAGCTGGCATAATTGTATTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACTCCGGGAGTGAAGCATGTGTTCTTAGTTCTTACAAATAAAGGAGTGCATATGCACAGAATATCTGAGACAGTTGGACAGATATTACTGCAAACATATGAACTGAGCAATGTGCCCATCAAATTATCAAAGCCAATAGGAGTGTGGGAGCATACGCTTGGATCATTGGATCAGAGTGTATCTTTTAATTCCAAACACTTTGATACACCTGTATCTGTTGCCATTCTGATTTATGAGAGCTTTGCAACCATGCTCTTTGCTGACGTCATCTGGGTAACTGGGTTATAACTTGTCATGCAAATATTTAACCTTATACACAGTCAAAATGTATTGTCCACATAGATTGTGAACGCTCAACATCACATCGCTTCTTTGTACTTTGGGTGCAGAATCTCCTGTGATAGTTTCTGACTTAATGAGCAATTATTTGAAATTTGTTGTGCAGCAACCGATGGAAGAGGCTAATTCAATCGCGTGGCCGCTCATTCATATTTTCAACTGCTTTGCCAGTTCCAGTAGTTGCCTCTGTGTATGGTAATACTCACATCGAATATTAAATTATAGCACCAACATTTCATTTGAGGGTAAAAGGCATAAGCATTGCTACCATATTAATTTCACATTAGTCGCTTAGTAAGAATGAAGATTTCAATAAAAACACCTGTGCATATCATTAAGATAATAGTTCATTGTAGAGTATGGTATGGTTAAGTAACTGAAATCTTTTCTAATTATTTCAGCTGCTCTCCATGTCTCAAAGAAGGAGAGATGGCGGAGATCAGTGATCTGGAGGCATGTGCAGTATTTTGCTTCTTTGACCAAACTCGACTTAACTAGTCCCATAATTTCCATAGTAGTTGGAAGCGAAGAAGCAGCACTTAGGGCTGGCAGGTTCTCATTTCTTCCATTTTTGTATATTGCTAGTCTTATTTGTTTAAAGTTTCTAATCTTTTCGTATAAATCTTCAGGCATATGCTAAGATCTGGATTTCATGTTACACCAATTCGACCACCCACAGTACCACAAAACTCGTGCAGGTTGTAGTATTTCTTTTCCTGTCATTTTCCATCCCTGTGTCAATTTATACAAAAAGAAAAAAAAATCACAACCGGTGTTGATTAGGGATCATAAACTGAGTAATTGAAGTAGAGCTCAGGGTATACATTGCTTTAGTTAATATGGTTTCTTGTACTACGGCACTGTGCTCTCTGTAGATGGTATCCCTGCTAGGTTTTGTTGTACTGTATGAGTCCTATTTTGATCAATATTGTAAACGAGCTAGGACTTGTATCAACCAAGCTTAAATGTTTTGGTTTCCATCAATCTCTTGCCAGGTTGCGAATAACTCTAAGCGCTTCTCATTCCTTGGATGACATCAAAAGGCTGGTAGATGCACTATCACCCTGGCTTCCTGACAAACATGATGAGCAGACATATGTTATGGCGTCAAAACTTTAAGCAAGTCCATCGGAGAATTCAGTTTCAATATCTGATGCCCTGCTAGTTGATATGAGGAAAAGGGGATAAGTTGATTCTAGTTGACGCGATTATTTGCATATATCCATTTATTTATGTTTGTATGATTGTATCACCACGATGTGAAACATAATTTATATGATCTCCTGATGCCCTACAAGTTGGGTAAAGGAATTTAAAAAGTATTATTTTATGACCTTTGCTATCTATAAAGAATTAAGTCGGAAAATTGACTGATAATATT More
CDS seq		ATGGCACAGTGGGACGCGCTCGTGGACGCCGCGCTTGCAAGGCTGGCGTCGAGGAACCTCCTGCGAGCCACGCGTCCCATCGCCCTCGCGCCACCTCCAGCGCCGCCTGAAACCTTCGCCGGCCCTGGCCCATGGGACCGCGCCGCCGTCGAGATCCAGCTCGATCGCGCAACCCTCCACCAATGGCTCGCCGAAGGTGGTGAAGCGACTGGCCAAGAAGAGGAGGTGGATGAGAAACTCATTCTATTCTCCGGGAATGATTACATGGGCCTCAGCTCCCATCCGGCAATCCGCAAGGCTGCAGTGAAGGCAGCTCAAGAGTACGGCATGGGACCTAGGGGCTCTGCCTTGATATGTGGCTATACTACTTATCACAAATTGGTGGAGGAATCTTTGGCAGAGTTGAAGAAAAAGGAGGATTGCCTTCTTTGCCCAACAGGATTTTCTGCCAACATGGCTGTGATGACTGCTCTGGGAAGTGTGAGCTCTATTTTGTCTGTTGGGAGAAAACCTGCAGAGGGTGAGAGAATTGCAGTTTTCTCGGATGCTCTCAACCATGCTTCTATCATTGATGGAATTCGCCTTGTTGAGCGACAGCAAGAAGTAGTAGCATTTGTCTACAAGCACTGTGACATGCATCATCTTGATTTCCTACTGTCCAGTTGCTCAATTGAAAAGAAAGTTGTTGTCACAGATAGCCTGTTTAGCATGGATGGTGATTTTGCTCCATTACCAGAACTTGTCAAATTACGCAGAAAGTATGGGTTTTTGTTGGTCATCGACGATGCACATGGAACACTTGTTTGTGGCGAGAATGGTGGTGGTGCACCCGAGCTGTTTGGATGCGAAAATGACATTGACATAAGCGTTGGTACCCTAAGTAAGGCTGCTGGCTGCCAGGGTGGTTTTATAGTTTGCAGCAACCGATGGAAGAGGCTAATTCAATCGCGTGGCCGCTCATTCATATTTTCAACTGCTTTGCCAGTTCCAGTAGTTGCCTCTGTGTATGCTGCTCTCCATGTCTCAAAGAAGGAGAGATGGCGGAGATCAGTGATCTGGAGGCATGTGCAGTATTTTGCTTCTTTGACCAAACTCGACTTAACTAGTCCCATAATTTCCATAGTAGTTGGAAGCGAAGAAGCAGCACTTAGGGCTGGCAGGCATATGCTAAGATCTGGATTTCATGTTACACCAATTCGACCACCCACAGTACCACAAAACTCGTGCAGGTTGCGAATAACTCTAAGCGCTTCTCATTCCTTGGATGACATCAAAAGGCTGGTAGATGCACTATCACCCTGGCTTCCTGACAAACATGATGAGCAGACATATGTTATGGCGTCAAAACTTTAA More
Protein seq		MAQWDALVDAALARLASRNLLRATRPIALAPPPAPPETFAGPGPWDRAAVEIQLDRATLHQWLAEGGEATGQEEEVDEKLILFSGNDYMGLSSHPAIRKAAVKAAQEYGMGPRGSALICGYTTYHKLVEESLAELKKKEDCLLCPTGFSANMAVMTALGSVSSILSVGRKPAEGERIAVFSDALNHASIIDGIRLVERQQEVVAFVYKHCDMHHLDFLLSSCSIEKKVVVTDSLFSMDGDFAPLPELVKLRRKYGFLLVIDDAHGTLVCGENGGGAPELFGCENDIDISVGTLSKAAGCQGGFIVCSNRWKRLIQSRGRSFIFSTALPVPVVASVYAALHVSKKERWRRSVIWRHVQYFASLTKLDLTSPIISIVVGSEEAALRAGRHMLRSGFHVTPIRPPTVPQNSCRLRITLSASHSLDDIKRLVDALSPWLPDKHDEQTYVMASKL
Function		8-amino-7-oxononanoate synthase [UniProtKB/Swiss-Prot:Q8GW43]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
Os01g0736400	Os01t0736400-01	Chr01	30712401	30717667	+	irgsp1_rep
CDS seq	ATGGCACAGTGGGACGCGCTCGTGGACGCCGCGCTTGCAAGGCTGGCGTCGAGGAACCTCCTGCGAGCCACGCGTCCCATCGCCCTCGCGCCACCTCCAGCGCCGCCTGAAACCTTCGCCGGCCCTGGCCCATGGGACCGCGCCGCCGTCGAGATCCAGCTCGATCGCGCAACCCTCCACCAATGGCTCGCCGAAGGTGGTGAAGCGACTGGCCAAGAAGAGGAGGTGGATGAGAAACTCATTCTATTCTCCGGGAATGATTACATGGGCCTCAGCTCCCATCCGGCAATCCGCAAGGCTGCAGTGAAGCTCAAGAGTACGGCATGGGACCTAGGGGCTCTGCCTTGA More
Protein seq	MAQWDALVDAALARLASRNLLRATRPIALAPPPAPPETFAGPGPWDRAAVEIQLDRATLHQWLAEGGEATGQEEEVDEKLILFSGNDYMGLSSHPAIRKAAVKLKSTAWDLGALP

Gene	Transcript	Chromosome	Start	End	Strand	Source
Os01g0736400	Os01t0736400-02	Chr01	30714012	30717687	+	irgsp1_rep
CDS seq	ATGGCACAGTGGGACGCGCTCGTGGACGCCGCGCTTGCAAGGCTGGCGTCGAGGAACCTCCTGCGAGCCACGCGTCCCATCGCCCTCGCGCCACCTCCAGCGCCGCCTGAAACCTTCGCCGGCCCTGGCCCATGGGACCGCGCCGCCGTCGAGATCCAGCTCGATCGCGCAACCCTCCACCAATGGCTCGCCGAAGGTGGTGAAGCGACTGGCCAAGAAGAGGAGGTGGATGAGAAACTCATTCTATTCTCCGGGAATGATTACATGGGCCTCAGCTCCCATCCGGCAATCCGCAAGGCTGCAGTGAAGGCAGCTCAAGAGTACGGCATGGGACCTAGGGGCTCTGCCTTGATATGTGGCTATACTACTTATCACAAATTGGTGGAGGAATCTTTGGCAGAGTTGAAGAAAAAGGAGGATTGCCTTCTTTGCCCAACAGGATTTTCTGCCAACATGGCTGTGATGACTGCTCTGGGAAGTGTGAGCTCTATTTTGTCTGTTGGGAGAAAACCTGCAGAGGGTGAGAGAATTGCAGTTTTCTCGGATGCTCTCAACCATGCTTCTATCATTGATGGAATTCGCCTTGTTGAGCGACAGCAAGAAGTAGTAGCATTTGTCTACAAGCACTGTGACATGCATCATCTTGATTTCCTACTGTCCAGTTGCTCAATTGAAAAGAAAGTTGTTGTCACAGATAGCCTGTTTAGCATGGATGGTGATTTTGCTCCATTACCAGAACTTGTCAAATTACGCAGAAAGTATGGGTTTTTGTTGGTCATCGACGATGCACATGGAACACTTGTTTGTGGCGAGAATGGTGGTGGTGCACCCGAGCTGTTTGGATGCGAAAATGACATTGACATAAGCGTTGGTACCCTAAGTAAGGCTGCTGGCTGCCAGGGTGGTTTTATAGTTTGCAGCAACCGATGGAAGAGGCTAATTCAATCGCGTGGCCGCTCATTCATATTTTCAACTGCTTTGCCAGTTCCAGTAGTTGCCTCTGTGTATGCTGCTCTCCATGTCTCAAAGAAGGAGAGATGGCGGAGATCAGTGATCTGGAGGCATGTGCAGTATTTTGCTTCTTTGACCAAACTCGACTTAACTAGTCCCATAATTTCCATAGTAGTTGGAAGCGAAGAAGCAGCACTTAGGGCTGGCAGGCATATGCTAAGATCTGGATTTCATGTTACACCAATTCGACCACCCACAGTACCACAAAACTCGTGCAGGTTGCGAATAACTCTAAGCGCTTCTCATTCCTTGGATGACATCAAAAGGCTGGTAGATGCACTATCACCCTGGCTTCCTGACAAACATGATGAGCAGACATATGTTATGGCGTCAAAACTTTAA More
Protein seq	MAQWDALVDAALARLASRNLLRATRPIALAPPPAPPETFAGPGPWDRAAVEIQLDRATLHQWLAEGGEATGQEEEVDEKLILFSGNDYMGLSSHPAIRKAAVKAAQEYGMGPRGSALICGYTTYHKLVEESLAELKKKEDCLLCPTGFSANMAVMTALGSVSSILSVGRKPAEGERIAVFSDALNHASIIDGIRLVERQQEVVAFVYKHCDMHHLDFLLSSCSIEKKVVVTDSLFSMDGDFAPLPELVKLRRKYGFLLVIDDAHGTLVCGENGGGAPELFGCENDIDISVGTLSKAAGCQGGFIVCSNRWKRLIQSRGRSFIFSTALPVPVVASVYAALHVSKKERWRRSVIWRHVQYFASLTKLDLTSPIISIVVGSEEAALRAGRHMLRSGFHVTPIRPPTVPQNSCRLRITLSASHSLDDIKRLVDALSPWLPDKHDEQTYVMASKL More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	None	None	None

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_01g0736400	RBH	0.098404	0.000000	0.640799
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os01g53450	RBH	0.061462	0.000000	0.152353
Nipponbare \| IRGSP 1.0 \| RAP-db	Os10g0560900	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_01g0032820	RBH	0.0	0.0	3.170187
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_01g0032320	RBH	0.000000	0.000000	0.335549
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_01g0032750	RBH	0.255478	0.488857	2.512470
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_01g0032040	RBH	0.0	0.027093	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_01g0031730	RBH	1.004415	3.043264	4.489997
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_01G0510100	RBH	1.033237	2.4767425	2.89135
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_01g0031430	RBH	0.060681	0.088233	0.038647
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_01G0503300	RBH	0.5838785	1.081089	3.406176
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_01g0031670	RBH	0.000000	0.000000	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_01g0031720	RBH	0.049058	2.831343	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_01g0031900	RBH	0.0	1.500595	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_01g0032060	RBH	0.086375	0.000000	0.251713
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_01g0031840	RBH	0.0	0.652244	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_01G032300	RBH	0.332292	1.032729	0.408688
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_01g0031960	RBH	0.100180	0.000000	0.554152

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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