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
OsCMeo_03g0030320		OGI:03077500 \| 10/16			CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)			Chr03:28866120-28871591		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		OsEnS-52, -
DNA seq		tcaggcgctgtggctgtgatcctgcagcagctgcacgaagctgcggttcgcgagcagcttggcaatggcgagcgcctcgccggcgctgcggatgccggcgcgcctcctcagcacctcggtgaagggcccgtcccactcgccggtgcgcctccaccggaggacctcgaacgacatggtgtcccagtgctcgatgtacggcaggtgctccgccgccacgcgcgcctcgccgctctcccacccgctcgacaccgtctccctgatcggctccagccgcagggcctgggtgaacatcaccgacagcgccgccaccgcccgcttcaccgccgccgtcccctcctcggcgtcggggtcgtaggaggcgagcaccccggcggcccgcgccgcggccgctttcccgagcggcaggccggggacgtggtggaggccgccgatgaggtcgcggtaggtgttgcggaacgggaggcgcctggcgttggggatggcgtcctcgtcgccgcggaagacgtgccagtggtggctcccgttggtgaagccggcgaaggagatgtcgtggcggtgcatggccaggacggtgccgtcgccgtcgccgctacgcagtttgagaaagaccaggtcgtcgccgggtgggtcttgctgctgcgccgccgagaccgagagaacctctccgcggtggccggcgagattgaggaggaagcggaggaggaggaggagcagcgcggcctggaagttcgccatggtgagatcgagctagctagctccctaagctttgatgctctcctcagcaaagcaaagctatatatgcgcagtgtgtagtgatgaatcctcgcaatttgcgttgggcaactgcaccaggagggtgaactggttgaatgctgatagagctgtttacacctaaagttggcatttaggtttaaaattgaagagaattgtcaagatttgataaagttactggttttctctacaaggctggtctaaccgccgtgtattggccggtcagaccgttgcttgcgggccggtctgatcggcgtgccaacaagagcctagctcgtctacaatattttggtcgcgccatgaaaaaagcgtgtccctcctagcgttaggcagctagagaaagggaagaaaaactctcgcaattttcacacgtatgctcctagactgctaaacatcatgcattttttgaaaagaaaaaactagaaatattgccgcgcctgaccatgatgctgctgaattgagtatacacaattgctcaaactggttcaagagaattaacaattgaacattgtatcaaacataattatctcaacatattgaagagacttatttaccattatctcgtacacacgacaggaggtcgtttgcaagtttgctttggcacataaatctgaaagtagagaaatcaacacatcgtgtaccgataaactattgtgtcacttgattgtgaaggatcagaccagctttgtattgcatcagtgttaagcagtgataagaagcgaatactacttcccagtagtctttcaatgcaaaggaaaggatattaaggaacgatcatatcaatgcttaccaatcatcaatgcttgccaatgacagtaatttcaaattgatagattaagatacttaaatatcacacatcgatacaaaattacaacacttttgagtagttttgtaatttctctcccatatcaactctggtgaaaagaaatactatactaaaaaggctagacagttgtgatactatataaaactttgcttgttcgtattctggaaatgctccacacaaatatttccattttaggtaagaaatgaatgagtgtatagttggattggaaattttgacctgaactctgcatatacaacacaattaattttgtagtgctaaaaaaagctagcaatatgctaaagtgggtgagaatacttgatgtgtctaaactggctttaactcaatgcaaaataggatgtagtgattggagaagctttctgggatggatcaacatggtggagaaaaaccacttttatcctgccgtcactccttggtggactatagaaagtcacctatgttttcagttgcaaatattttggcattgtgaggttacagattactaattcagatttagaagatagacaaatgcatagaaaggaagaagctcacttcagatataatggctataatataataacattaccttaaaccacggtacaaccaactgtcctgaagggtatagggttaaaaaaggtggggagcaacaaaccaatagggaaaattagcgtttcatgggaagaaacaaaagaatttatatgtttgcattaagcacctagatatttaagtacagaccacatagactgtgagtaataacattatgtgaatatctttttctaaatatgcaaccacttttcagtttgttaagctagttaagctaggaaataagtattgatctggcttgcttgttcgaagaagaaaccacccccaataactgcagtcaccttgcctagcttagaaaagaagaaaagcaattctctcacgcaaaaatattgttttgaactggtcgaacgctgatagcacacaccataatcacgaaaacgtaacaacacagcattttttccgcgttcgttcaatcaggatcccaacctccactccctcgcttttcgcgcgcacacttttcaaactgttaagcggtgtattttttttaaaaaaaaaatttaatatgaaagttacttaaaaaatcaaattaatcatttttttaaaaaataactaatacttaattaatcgcgcgctaataaacggttccgtttttcgtgcagaggggatggtttccaaccccaacaatcgaacacaggcgcaagctaatctgctgctggaaattgtggactcacacacatacacaaatgaacgagaacttgtcgctaatggaaacgttattactactactctacaactaactttaacagtttatcatagaggtcagtagactcagtgcggcacatcgccgccgccgagccgtcgccgagcagcttttgccgactgccggaacgtccagccgacgacggcgagcgcctcctccgcgctgccgatgttggcgcgctccctcagcacgccggtgaacggcccgccccactcgccgcgccgcctccacctcccgagctcgtgccacatggcgtcccagtgctcgatgtacggcaggtgctcgtcggcgatccgggcctgctccccggcgggcgccctccccatccggctggcctccagcacggcccgcgcgatcggccggagcagcaggggccgtgctcgctggtggtggtggtcgccgcggtggaacaggtggtcgctgccgcgcagggcgtgccagtggccgctccggttggcgaagccggcgacgaacatggtgtcgaccctcaccgccagcgccccggcgccgctcccgaagtcgagcaggtccaccatggacagcttgcccctcaggctcgtgggggacagctcgacgtgccccctgcgctgagagagacgagcgggaggaggaggaggacgaagaggaatggtgcggcggccatggtgaggagtgaggaatgcgtgcaaaccttgggcaagcgggcggcgatttatccgccggcccggcaagagggcggcgtgagatctcggcggagtggcaggtgtgcggcgagtttgttgccggaggcggcggtggctcgccgcgcgcgatcggcgtgagcgaaactcttgaccgcgaaggcgaaaagtagagccgctgacaggtgcaggggtgggcattccgtctaaccgaaaaaatcggttcggtttttcggtcttttaaaaaattcggtttttagaatcactcggtcttcaagaaaactcaggaccgagcgattcggtcttcggtttgttcggttcggtctcggtcataaaccgaactaaccgtaacactaactgtggtttgaacggcagaaaaaaataatcacaaaaatagtactcgtaaaagatcgatgaatcaaatcaactcagatcgaatcaaagcagctcggatgaacgacaggtcgacagcaatatgatgatcccacgagcaagtagcaggtagagcacgactcagagaaaagaagcaaatcaagcaaattaatcctactgtgacttggatcccgtcgatctccatcgcccctccgaaagctccatatctcatccatctcgtctcccatcgtcgttgttcccggctacccgcggctgccatcgctttaatcacaagctcacggccggcgtcctccgccagcgaggtctcttccaccaccgtccaccagggtgcagctgggcgaccgggctagagtgcgtcgggttgggaagggatcgccacagccgcacgaccttcttgggaggcgctcctccgtcgggcggcgttgggcggtgctgcaccgtcgggcatcgggactgggagttgcagaggataagatcgtggcttcgtgagcagggactaggtggttgttgctcacgtgatgaggtattgggcctagtgggctgagatgtcacatgtggtattgggcctctgatatatttcggttttttcggtcaattcagttaaccgagcctcaagaccgaattgaccgaactaaattcggttagttgaaagtgcataccgaatttatgaccgaatttctcggtctcggttagttcggttttggtctcggtcatttcggttcggtttttttctgtccacccctagacaggtggggcatgagtatacaagattttttgcgcatgatctggtggcacacacattggaacgtattttgtgtgaatttgaatcatccgatgatccgtgcagccatttgcattggcagaaggaaaacggagaaatttgtttggacgcttctgtttgatcatttcagaagcgtgtggccggcctagaatgagtttggctaatgcccaaatcctcgtgccttgctctgatctagaatgagtttggcaaatgtcccaaatcctcatgaactgaacaaggagtatcaagcctgtgccgaagaacaggtccagtaaaagaagtatccccattcggtccaacactttggcacttggaattgacgctcgtgctgatcgattgtgttttcaaacagtatatgcaactagaagtgtaacagaatcattggcggccgcttaacttgcagacggtgaaagaagaaatctgttaccactgtacatatccaacagttcttttttttcgtaggagccatattcttttttttgacagtatgttcaacaatgcttgcagctgttaatttgctgtagatgtgatgtgtcaacactctcaaaggtgcagttagattcatgaaattttgatgctgaatttaatttggattaaccatcacaataccaatctgtatgaaacggaactcccatcagtaaacagcactgaggcacaaaacatttactgcataataatcgtcagaggcggctcaccaaattaagttctaaacactttgatctgaaaacacaaaacacaacat More
CDS seq		atggcagccgcgggtagccgggaacaacgacgatgggagacgagatggatgagatatggagctttcggaggggcgatggagatcgacgggatccaagtcacagtaggattaatttgcttgatttgcttcttttctctgagtcgtgctctacctgctacttgctcgtgggatcatcatattgctgtcgacctgtcgttcatccgagctgctttgattcgatctgaggggcacgtcgagctgtcccccacgagcctgaggggcaagctgtccatggtggacctgctcgacttcgggagcggcgccggggcgctggcggtgagggtcgacaccatgttcgtcgccggcttcgccaaccggagcggccactggcacgccctgcgcggcagcgaccacctgttccaccgcggcgaccaccaccaccagcgagcacggcccctgctgctccggccgatcgcgcgggccgtgctggaggccagccggatggggagggcgcccgccggggagcaggcccggatcgccgacgagcacctgccgtacatcgagcactgggacgccatgtggcacgagctcgggaggtggaggcggcgcggcgagtggggcgggccgttcaccggcgtgctgagggagcgcgccaacatcggcagcgcggaggaggcgctcgccgtcgtcggctggacgttccggcagtcggcaaaagctgctcggcgacggctcggcggcggcgatgccgcgctgctcctcctcctcctccgcttcctcctcaatctcgccggccaccgcggagaggttctctcggtctcggcggcgcagcagcaagacccacccggcgacgacctggtctttctcaaactgcgtagcggcgacggcgacggcaccgtcctggccatgcaccgccacgacatctccttcgccggcttcaccaacgggagccaccactggcacgtcttccgcggcgacgaggacgccatccccaacgccaggcgcctcccgttccgcaacacctaccgcgacctcatcggcggcctccaccacgtccccggcctgccgctcgggaaagcggccgcggcgcgggccgccggggtgctcgcctcctacgaccccgacgccgaggaggggacggcggcggtgaagcgggcggtggcggcgctgtcggtgatgttcacccaggccctgcggctggagccgatcagggagacggtgtcgagcgggtgggagagcggcgaggcgcgcgtggcggcggagcacctgccgtacatcgagcactgggacaccatgtcgttcgaggtcctccggtggaggcgcaccggcgagtgggacgggcccttcaccgaggtgctgaggaggcgcgccggcatccgcagcgccggcgaggcgctcgccattgccaagctgctcgcgaaccgcagcttcgtgcagctgctgcaggatcacagccacagcgcctga More
Protein seq		MAAAGSREQRRWETRWMRYGAFGGAMEIDGIQVTVGLICLICFFSLSRALPATCSWDHHIAVDLSFIRAALIRSEGHVELSPTSLRGKLSMVDLLDFGSGAGALAVRVDTMFVAGFANRSGHWHALRGSDHLFHRGDHHHQRARPLLLRPIARAVLEASRMGRAPAGEQARIADEHLPYIEHWDAMWHELGRWRRRGEWGGPFTGVLRERANIGSAEEALAVVGWTFRQSAKAARRRLGGGDAALLLLLLRFLLNLAGHRGEVLSVSAAQQQDPPGDDLVFLKLRSGDGDGTVLAMHRHDISFAGFTNGSHHWHVFRGDEDAIPNARRLPFRNTYRDLIGGLHHVPGLPLGKAAAARAAGVLASYDPDAEEGTAAVKRAVAALSVMFTQALRLEPIRETVSSGWESGEARVAAEHLPYIEHWDTMSFEVLRWRRTGEWDGPFTEVLRRRAGIRSAGEALAIAKLLANRSFVQLLQDHSHSA
Function		60 kDa jasmonate-induced protein [UniProtKB/Swiss-Prot:Q00531]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsCMeo_03g0030320	OsCMeo_03g0030320.01	Chr03	28870336	28871591	-	NAM
CDS seq	atgttatcaaagtgtttagaacttaatttgcaccgcccaacgccgcccgacggaggagcgcctcccaagaaggtcgtgcggctgtggcgatcccttcccaacccgacgcactctagcccggtcgcccagctgcaccctggtggacggtggtggaagagacctcgctggcggaggacgccggccgtgagcttgtga
Protein seq	MLSKCLELNLHRPTPPDGGAPPKKVVRLWRSLPNPTHSSPVAQLHPGGRWWKRPRWRRTPAVSL

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsCMeo_03g0030320	OsCMeo_03g0030320.02	Chr03	28866120	28870519	-	NAM
CDS seq	atggcagccgcgggtagccgggaacaacgacgatgggagacgagatggatgagatatggagctttcggaggggcgatggagatcgacgggatccaagtcacagtaggattaatttgcttgatttgcttcttttctctgagtcgtgctctacctgctacttgctcgtgggatcatcatattgctgtcgacctgtcgttcatccgagctgctttgattcgatctgaggggcacgtcgagctgtcccccacgagcctgaggggcaagctgtccatggtggacctgctcgacttcgggagcggcgccggggcgctggcggtgagggtcgacaccatgttcgtcgccggcttcgccaaccggagcggccactggcacgccctgcgcggcagcgaccacctgttccaccgcggcgaccaccaccaccagcgagcacggcccctgctgctccggccgatcgcgcgggccgtgctggaggccagccggatggggagggcgcccgccggggagcaggcccggatcgccgacgagcacctgccgtacatcgagcactgggacgccatgtggcacgagctcgggaggtggaggcggcgcggcgagtggggcgggccgttcaccggcgtgctgagggagcgcgccaacatcggcagcgcggaggaggcgctcgccgtcgtcggctggacgttccggcagtcggcaaaagctgctcggcgacggctcggcggcggcgatgccgcgctgctcctcctcctcctccgcttcctcctcaatctcgccggccaccgcggagaggttctctcggtctcggcggcgcagcagcaagacccacccggcgacgacctggtctttctcaaactgcgtagcggcgacggcgacggcaccgtcctggccatgcaccgccacgacatctccttcgccggcttcaccaacgggagccaccactggcacgtcttccgcggcgacgaggacgccatccccaacgccaggcgcctcccgttccgcaacacctaccgcgacctcatcggcggcctccaccacgtccccggcctgccgctcgggaaagcggccgcggcgcgggccgccggggtgctcgcctcctacgaccccgacgccgaggaggggacggcggcggtgaagcgggcggtggcggcgctgtcggtgatgttcacccaggccctgcggctggagccgatcagggagacggtgtcgagcgggtgggagagcggcgaggcgcgcgtggcggcggagcacctgccgtacatcgagcactgggacaccatgtcgttcgaggtcctccggtggaggcgcaccggcgagtgggacgggcccttcaccgaggtgctgaggaggcgcgccggcatccgcagcgccggcgaggcgctcgccattgccaagctgctcgcgaaccgcagcttcgtgcagctgctgcaggatcacagccacagcgcctga More
Protein seq	MAAAGSREQRRWETRWMRYGAFGGAMEIDGIQVTVGLICLICFFSLSRALPATCSWDHHIAVDLSFIRAALIRSEGHVELSPTSLRGKLSMVDLLDFGSGAGALAVRVDTMFVAGFANRSGHWHALRGSDHLFHRGDHHHQRARPLLLRPIARAVLEASRMGRAPAGEQARIADEHLPYIEHWDAMWHELGRWRRRGEWGGPFTGVLRERANIGSAEEALAVVGWTFRQSAKAARRRLGGGDAALLLLLLRFLLNLAGHRGEVLSVSAAQQQDPPGDDLVFLKLRSGDGDGTVLAMHRHDISFAGFTNGSHHWHVFRGDEDAIPNARRLPFRNTYRDLIGGLHHVPGLPLGKAAAARAAGVLASYDPDAEEGTAAVKRAVAALSVMFTQALRLEPIRETVSSGWESGEARVAAEHLPYIEHWDTMSFEVLRWRRTGEWDGPFTEVLRRRAGIRSAGEALAIAKLLANRSFVQLLQDHSHSA More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsCMeo_03g0030320	OsCMeo_03g0030320.03	Chr03	28869000	28869680	-	IsoSeq
CDS seq	acgcattcctcactcctcaccatggccgccgcaccattcctcttcgtcctcctcctcctcccgctcgtctctctcagcgcagggggcacgtcgagctgtcccccacga
Protein seq	THSSLLTMAAAPFLFVLLLLPLVSLSAGGTSSCPPR

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.223953	0.0	0.259558

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_03g0687700	RBH	0.0	0.0	8.877439
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os03g48225	RBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| RAP-db	Os03g0687700	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_03g0030530	RBH	0.0	0.0	0.0
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_03g0030260	RBH	0.0	0.0	1.045992
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	NA	NA	NA	NA	NA
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_03g0030420	SBH	0.217059	0.0	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_03g0030120	RBH	0.0	0.0	0.0
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_03G0473100	RBH	0.0567485	0.047361	0
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_03g0029820	RBH	0.0	0.0	0.0
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_03G0473900	RBH	0.0878695	0.010234	0
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_03g0030160	RBH	0.0	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_03g0030230	RBH	0.0	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_03g0030190	RBH	0.0	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_03g0030000	RBH	0.646126	0.0	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_03g0029960	RBH	0.0	0.0	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_03G029980	RBH	0.394831	0.0	0.0
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_03g0029910	RBH	0.0	0.0	0.0

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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