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_01g0009570		OGI:01023170 \| 16/16			CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)			Chr01:7873868-7879075		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		acttgcgcggagctgaagagccggctcgttcctctccttcccgttcacatttcaaaacctcaaagcccccacaaacttcggaatcgaggtgagcgggagttcggagagatcaacccgagggccgccggccgatggcgatagatcagcccatcaaagcaagttctttcctctccctctctatctgtatctctcgtttctcgattaaacccagtttttttgggggtcatttgcttcgcttattcactgttcatccggttgattagagaccgagggttctttgatttgttccactctctcttgaatcatcgattaatggcggcggatttgggggctaaaagtttttgtcttttgtgttagatttcatcttcttagctgcttttcttgttttgattcttcgatccgagtgggagactgaagagagtgttctgtgtgtgtgagagagagacgtgttcttgaaaatttccccatgctttttttttcggatgacggagtgatctgatatttcagctatgttatatggttatctgtgatcttcttggagattttgcttcctctttgatcaatttggttgtactgctcgttcttggatacgatttttgttttctgtttaatgactgaaatattggtgtttacttccatgggtaatctgaatctaattcgcttgtcctttggttggttgttcttgagcagaagagagggagaccaccaggttccaagaacacgaagaacaagatggagcagaagatggaactagtccatcaaaggctcgccttacttgacagcagcagtggcagcgacagggatgacgatattgggccgagggtgagattcttgcattatcatttcccattgatgcgatacatacattgttgttgttgcaaggcattcaaatcaggacaggttctaactggaaaaaatgggagaggcatatactacaatacctgggtgtatgcccaatctggattcttaatttgataatattatctacttctacttaaatgctaccctgaataattcatgtatcgcagcacatctgtatgttgatatgtcacttcacaatctggattctatccgctcgttcttgcatgtttatgaagtgacatatcacatattaatctactccctttgtcccaaaatataagcatttttagctatgaatatggacaactgtgtgtctagattcatagccaaaagctgttacattttgggacggaggtagtatcttatcaaaTttttttcataactatttggatgacatacaagaaagagggattaaaaagagtttcccgtaggttcacaaattttgtaactctgaacaggtaagtcatgacaaattatcagatgctgtatttgcttaaatggtcactttatgtgttaactgtgaattttatccaggtctataaagtactatagatgttaatatatttctctataaacttgatcgaatgagagaagttttgacttaggacaaaactaaaagaccttgaattatggaaaggagggggtatttctagcttatgtttcttttttctgttaatgctcattaacatctggtagcccctataataatcaagggttaattggatctatgccattataagaatcatgtatttaccatgatatcaagaatatatgttctttttgtacttgcagaattataatcttgcttttgttgttgctccacaggctataataattgattgtgatgaagatgatacggatgacgtgatggaggttgttcctttgaaagtaagggcagtgctgctttagttagcgggtggaattttgtcactcgagaagacatccccttgttttgtgcatgttgttcaaaaagtcataaaaaattgaaaacataagatagatcaatatgtaaaatatctcttcacaaacatgcaagttcaaattcgacctatacaagtagaaaaacaaaaacaataaatttgattacaaatagtgtgttttgttctatcgtgtcacatattgatctataatgtcaaatcttcttaaacttttttatgatgttttgggcgacatgcacaaaacaaggggatgtctcctcaagggacaaatagacttttccctttatatgattatctgtttacaatggtgtaagtttatatgatataaactacatgtgctctatttagagcatccctgtcaatgatgctacatcattgatagcactctatgtagcaacaatattttcaattgcacaaactcacaatatctgtcctccttgttatctcataacttcatttattaattctcatctcaaaaacaacttattgattaagtgttctgatttttcttggatttcttactgtgcaagatgctgatgccaaaggaggtggaaaatgagcaaagaacggttcctggcattcctcaaacatgcaatacccagaacactagcaatggacgcactaacaccactgaagtaagatatgttcaccaactctatctgtattgtatgaatgcagtatgaatgtaattgtaagaggactttcagttttcatctataaagctcataatacccctaaagatttttatatcataagccatagcatttaggatttcgattggctggctgaaatctccggttttccaattcgaaaaaaaaagatcacataatgtaatcctggaacacatctccaatctttattcagtggactttaccatttcctttccaattcctgtataatgtatacgaaaccgttgcacttttgagctccattactcataactgaatgagttgtgacttaacaggtgccagttaagggccaaaataaatgtgcaaggtattccagctctccttgttcttcttatgaaaaaaactacttatgtagctcacaagcttgttcaatcacacgcagttatcttccaaaaaaatctagtgttcaggcgttctgtggatctgctatgaagagagctcaagagattcaaacgaagttaccagcagagcatcctagctttgttaaacatatgttacattcacatgttgtcagcggattttggctggtaagggttgtagattactaacttttcttatgcttgtcaatttatgaagccttagataattgtttcttatgaacaggctgtggagaagcaccttctgcagaaacatacaaattgcatttactattagaagattttatttgtcaaacaaatgctctcactaaaattagaaagtaaaagtttaaagcgtgttatggatcttatttaaaacttcctactaccctattaacatgttctaaacttctaatctttttcattaaattttgttttaggaagagaagtctcacacatacaagttatatccaacttatgtacatttcttgcatgttagctcttactgcttgagttattgtgtttatgaaaatggctgacactagttctgcacaagccacctagaaacttctttttggttttctctgcatctgattattgttctcctctgcagggtctaccagctggcttctgcaacaagtatctcccaaagcatgacactgacattgtgctcgaagatgagaatgggaacaaccataacacaaattacctgggtggtaagcagggactcagtgctggatggagaggttttgcgattaaccatgatatcaaggttggcgatgttgtggtctttgagcttgtgagcacaacaaaattcaaggcaagtgtttctgaaatgcttgataactttcttccaaatctactactactacttgattgttcctttataatcttcattcatacccatttcttgagttcccttgtgggttcagtcttccctaatccaacaatacaattacctcttgtttcttcatgccttacattcaggtgcatataattagagataaaaacatcagcccaactgacagagcacccggtctcaagagtttttacgcctgcaagaaacggaagatatctagtgagtcaaagtttatgttgttagttttgcaccttgaaatgtgttagacatgggaatatacactaactattgaatctcccgaatcatgtgctgtgttctacatgacagaagaagctactgataatgccaccaagcctaaggaggatccagagactactagagtcagtagcaaagtggctcatgatgatacccagaatctagttcatgaagcaatagacggcatcaggttttcagactcagagatgagctttgacgacgtgatgagctacagtaacttcaacatcgtcgtggacggcttggtcattgactgcaagttccccgatcaccagcgcaggacgtactatgagctgtgctgcgcccagaagtcgttcctccacaggcatctgctgaggcagctgagcctcacgctcgtcgtgggggtgatcatggagacgatcaacatcgctgagggcatcagggcctgcggggcgggtacctcctcgcaagaggacttcctgatctggaagaagacgctgcagtcattcgacctgctgggaatgaatgttgcgttcttgctcaagcgcgttgacgatattctcggcctccccgagcaaccgagggatccatcggagtgtagcaagtacaatgagctgaagcttgagcggtctcgtgctggggagaaggtgaaggctctggagtccatgatgttgacagtgaaggatgtgctgaagaagatcgatgccgagatggaggagatggagtcgagcgtgaggaaccatgacattgcgctgcggaagatcgccactgcgccatggtgatcctgcttgacatctggggtacttgtctgaaacattttgggttcgtcattcagggtttcagatgatgatgatgatgatgatgcactgggaaaccttcgtggtgagtgactgagtggtgaatcctgctaaactcaaggactgaccacatttttgtgtacatttcttcagttactaccacgcagctcagtgcctatctagaactgttcagcagcaaacctgtctaggaatcaggatgctgtttttacacggtaaatcgtataacagaagttgtaaattttggggggcgaatgcgctgtaagcagtgcaggaaatgcgaggaagaaatgcagaacactacttaattatttcagactccgtcattcagtgcaccctgttcttggtgcctgtttggttggtcggtaaaggaggcgtgatctgaataccggatgccaccttcagtaattttcagattgttctaatttacatataacaaatttgtcatttctttta More
CDS seq		atggagcagaagatggaactagtccatcaaaggctcgccttacttgacagcagcagtggcagcgacagggatgacgatattgggccgaggatgctgatgccaaaggaggtggaaaatgagcaaagaacggttcctggcattcctcaaacatgcaatacccagaacactagcaatggacgcactaacaccactgaagtgccagttaagggccaaaataaatgtgcaagttatcttccaaaaaaatctagtgttcaggcgttctgtggatctgctatgaagagagctcaagagattcaaacgaagttaccagcagagcatcctagctttgttaaacatatgttacattcacatgttgtcagcggattttggctgggtctaccagctggcttctgcaacaagtatctcccaaagcatgacactgacattgtgctcgaagatgagaatgggaacaaccataacacaaattacctgggtggtaagcagggactcagtgctggatggagaggttttgcgattaaccatgatatcaaggttggcgatgttgtggtctttgagcttgtgcatataattagagataaaaacatcagcccaactgacagagcacccggtctcaagagtttttacgcctgcaagaaacggaagatatctaaagaagctactgataatgccaccaagcctaaggaggatccagagactactagagtcagtagcaaagtggctcatgatgatacccagaatctagttcatgaagcaatagacggcatcaggttttcagactcagagatgagctttgacgacgtgatgagctacagtaacttcaacatcgtcgtggacggcttggtcattgactgcaagttccccgatcaccagcgcaggacgtactatgagctgtgctgcgcccagaagtcgttcctccacaggcatctgctgaggcagctgagcctcacgctcgtcgtgggggtgatcatggagacgatcaacatcgctgagggcatcagggcctgcggggcgggtacctcctcgcaagaggacttcctgatctggaagaagacgctgcagtcattcgacctgctgggaatgaatgttgcgttcttgctcaagcgcgttgacgatattctcggcctccccgagcaaccgagggatccatcggagtgtagcaagtacaatgagctgaagcttgagcggtctcgtgctggggagaaggtgaaggctctggagtccatgatgttgacagtgaaggatgtgctgaagaagatcgatgccgagatggaggagatggagtcgagcgtgaggaaccatgacattgcgctgcggaagatcgccactgcgccatggtga More
Protein seq		MEQKMELVHQRLALLDSSSGSDRDDDIGPRMLMPKEVENEQRTVPGIPQTCNTQNTSNGRTNTTEVPVKGQNKCASYLPKKSSVQAFCGSAMKRAQEIQTKLPAEHPSFVKHMLHSHVVSGFWLGLPAGFCNKYLPKHDTDIVLEDENGNNHNTNYLGGKQGLSAGWRGFAINHDIKVGDVVVFELVHIIRDKNISPTDRAPGLKSFYACKKRKISKEATDNATKPKEDPETTRVSSKVAHDDTQNLVHEAIDGIRFSDSEMSFDDVMSYSNFNIVVDGLVIDCKFPDHQRRTYYELCCAQKSFLHRHLLRQLSLTLVVGVIMETINIAEGIRACGAGTSSQEDFLIWKKTLQSFDLLGMNVAFLLKRVDDILGLPEQPRDPSECSKYNELKLERSRAGEKVKALESMMLTVKDVLKKIDAEMEEMESSVRNHDIALRKIATAPW
Function		B3 domain-containing protein Os01g0234100 [UniProtKB/Swiss-Prot:Q0JP99]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsCMeo_01g0009570	OsCMeo_01g0009570.01	Chr01	7874600	7878953	+	NAM
CDS seq	atggagcagaagatggaactagtccatcaaaggctcgccttacttgacagcagcagtggcagcgacagggatgacgatattgggccgaggatgctgatgccaaaggaggtggaaaatgagcaaagaacggttcctggcattcctcaaacatgcaatacccagaacactagcaatggacgcactaacaccactgaagtgccagttaagggccaaaataaatgtgcaagttatcttccaaaaaaatctagtgttcaggcgttctgtggatctgctatgaagagagctcaagagattcaaacgaagttaccagcagagcatcctagctttgttaaacatatgttacattcacatgttgtcagcggattttggctgggtctaccagctggcttctgcaacaagtatctcccaaagcatgacactgacattgtgctcgaagatgagaatgggaacaaccataacacaaattacctgggtggtaagcagggactcagtgctggatggagaggttttgcgattaaccatgatatcaaggttggcgatgttgtggtctttgagcttgtgcatataattagagataaaaacatcagcccaactgacagagcacccggtctcaagagtttttacgcctgcaagaaacggaagatatctaaagaagctactgataatgccaccaagcctaaggaggatccagagactactagagtcagtagcaaagtggctcatgatgatacccagaatctagttcatgaagcaatagacggcatcaggttttcagactcagagatgagctttgacgacgtgatgagctacagtaacttcaacatcgtcgtggacggcttggtcattgactgcaagttccccgatcaccagcgcaggacgtactatgagctgtgctgcgcccagaagtcgttcctccacaggcatctgctgaggcagctgagcctcacgctcgtcgtgggggtgatcatggagacgatcaacatcgctgagggcatcagggcctgcggggcgggtacctcctcgcaagaggacttcctgatctggaagaagacgctgcagtcattcgacctgctgggaatgaatgttgcgttcttgctcaagcgcgttgacgatattctcggcctccccgagcaaccgagggatccatcggagtgtagcaagtacaatgagctgaagcttgagcggtctcgtgctggggagaaggtgaaggctctggagtccatgatgttgacagtgaaggatgtgctgaagaagatcgatgccgagatggaggagatggagtcgagcgtgaggaaccatgacattgcgctgcggaagatcgccactgcgccatggtga More
Protein seq	MEQKMELVHQRLALLDSSSGSDRDDDIGPRMLMPKEVENEQRTVPGIPQTCNTQNTSNGRTNTTEVPVKGQNKCASYLPKKSSVQAFCGSAMKRAQEIQTKLPAEHPSFVKHMLHSHVVSGFWLGLPAGFCNKYLPKHDTDIVLEDENGNNHNTNYLGGKQGLSAGWRGFAINHDIKVGDVVVFELVHIIRDKNISPTDRAPGLKSFYACKKRKISKEATDNATKPKEDPETTRVSSKVAHDDTQNLVHEAIDGIRFSDSEMSFDDVMSYSNFNIVVDGLVIDCKFPDHQRRTYYELCCAQKSFLHRHLLRQLSLTLVVGVIMETINIAEGIRACGAGTSSQEDFLIWKKTLQSFDLLGMNVAFLLKRVDDILGLPEQPRDPSECSKYNELKLERSRAGEKVKALESMMLTVKDVLKKIDAEMEEMESSVRNHDIALRKIATAPW More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsCMeo_01g0009570	OsCMeo_01g0009570.02	Chr01	7873868	7879075	+	IsoSeq
CDS seq	atgagcaaagaacggttcctggcattcctcaaacatgcaatacccagaacactagcaatggacgcactaacaccactgaagtgccagttaagggccaaaataaatgtgcaagttatcttccaaaaaaatctagtgttcaggcgttctgtggatctg
Protein seq	MSKERFLAFLKHAIPRTLAMDALTPLKCQLRAKINVQVIFQKNLVFRRSVDL

Event Type	Chromosome	Start	End	Strand	Alternative mRNAs	Total mRNAs	Source
A3	Chr01	7876882	7877325	+	OsCMeo_01g0009570.02	OsCMeo_01g0009570.01,OsCMeo_01g0009570.02	All
SE	Chr01	7874689	7876197	+	OsCMeo_01g0009570.02	OsCMeo_01g0009570.01,OsCMeo_01g0009570.02	All
A5	Chr01	7877510	7877699	+	OsCMeo_01g0009570.02	OsCMeo_01g0009570.01,OsCMeo_01g0009570.02	All

Expression

	Leaf	Root	Panicle
FPKM	0.631312	0.000000	1.266198

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_01g0234100	RBH	0.865649	0.652450	1.471551
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os01g13300	RBH	0.577526	0.394995	0.342835
Nipponbare \| IRGSP 1.0 \| RAP-db	Os01g0234100	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_01g0009590	RBH	0.089950	1.242484	0.600576
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_01g0009230	RBH	0.073451	0.0	1.057227
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	NA	NA	NA	NA	NA
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_01g0009110	RBH	0.041826	0.000000	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_01g0009150	RBH	2.148928	6.736945	0.0
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_01G0120900	RBH	0.3521405	0.319767	0.184623
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_01g0009160	RBH	0.056748	0.0	0.177810
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_01G0120800	RBH	0.380575	0.1204825	3.1924785
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_01g0008150	RBH	0.120821	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_01g0009190	RBH	0.0	0.000000	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_01g0009140	RBH	0.000000	0.000000	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_01g0009270	RBH	0.110257	0.000000	0.135020
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_01g0009070	RBH	0.0	0.000000	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_01G009220	RBH	0.147662	0.0	0.239305
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_01g0009100	RBH	0.418106	0.000000	0.687492

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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