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_09g0016650		OGI:09058480 \| 16/16			CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)			Chr09:20074551-20081117		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		caccaccgctcttccgcgcttcgcttctctcgccgtctcgcggctgcgcggcgcggcgctctcatccatcccctcctcccgcttcccccacccgccgcccgatctcgacggcggatcgccccgggatgggctccgacgaagacgagctgctcgacgacgaggagtactactactactgcagcgacggggagtgtagcggcggcgggagcgggagcgacgaggatgaggagttcgggggccgcgggagcgacgagggctgtgaggccgacgaggtcgtctccacgcgcgagcaggtgctgtctgtgaattgcgatcaatgcccttgcgtgtttcgttccgtcgttcaaatgagagaggcccccccttttcggatttctggatagcgagtggcgctgctgttgtggtgatggtgatttgtggctttgatgctgattcggttttgggtgcgagaatcctgcgtgttctgtggtaattcgacgttctgagcgacaggtgcaatgcgatgtacgagtggtttatgcttgtatggtgatggtgattagtgtctttgatgatgatcggttttgggatcagaaaccctcgcgtattctgtggtcatttgatagaatttctgggaaacaggtgcaatgcgatggtggtgtgcttagagtcgcagcgaaatttgttcatggcttctctgctttacagatagcaaaacgtttcatccttcggggaaaaaaatagcaaaacatttaccaagatctcaatagattatagatatgatgttttctcttcataaattgtttcgatagcttggatggttgtttactctacagattgagagtttgagactgctattttccttctctgcattgtatgtcattaacgtaattgtgttttggtccttttgttcatgctgccctgcctttctgtttctctattcttaattcttgtatacttggtgtcagaactaactcaaaatctcaaatgggcctcttctgtgttcattttcttatgaacagagatatgttgtgttgaccgaagatgatatacgcgagcgacaagaggaaatgataagccgtgtgtctgcaatattttcagttccaagggaatcagcatgcgtcctccttcgtcactacaaatggtcagtgccgccgctccagcagctcgtcctttctgaacacactctactgttttatttccgttgtagtgaatttgagaagcccatctcatgtatctcttgtttacaagatgtactgcaaatgctttgtgtagttatatgtatatgtaatagcattttcttactgctggcctgccacaaaggtaggatgcttttgagctaaactagaagatccttttctatgttaacaatgtatcttcattttgttgttcaggagtattagcaagctaagtgatgactggttcgcagatgaagaaaatgtccgccgttctgttggcttgccatcaaatgttgttcatgttcctgactgtcctgaggtagaattacattcctaaaagatatggagcttcattgggtttttttttatcatattgtatcatatctggtttgaattggtgactaatgtagttaactgcatgttgtaatttctatttgtttctttggttgcagctaacttgtggaatatgttttgaaggatgtgctgcaaatgcaatgagctgtgctggttgttcccatttctattgtcatgaatgttgggaaggtctatctgtctctctctctctctctccatcactcatttttacattataagttctttgtgacttcaagattttgttattttacttgtaacattacgaattgattgctattgtaactataacaaattgatagatgactttgttgttctcactttcagtagtttgtagcattcttgttcttaaaagaattctgaaatttatggtgctaaaatgaggtaaattttcagggtatattagtgctgcagtaaatgatggtccagggtgtttggtgttgcagtgccctgaaccatcttgtgatgcaatcgttcttgaagatatgattaatagtctgacgaaagatgaggataaagtaaagtatgcacgatttgtattatggtcatatattggagttaacaacaaggtaattctttaaagtactcagcgctcataatggttcacattatcgttctcccaattatgtttattaaaccttactgtattgcccatcagatagtagtactatttactatttactatatagttggtatatacttgcttatatttatgccaagtgtcaccccaaatggttttcaaaaaaacatatttctgaagtaataaaaattaattcctgcagataaaatggtgtccagctcctgattgtacctgtgcagttgagtttcttggtgatggtaactatgatgtctcatgcaaatgcaaattcagtttttgctggaatgtcggtatttctttatttatttatttacttgtatacctttcagattgattgtttgatattaccagttaaatctttggtaaatgcagtgtgcagaggaagctcatcggccagttagctgtgacacagtctcaaagtggatactaaagaacagcgcagaatctgaaaacatgaattggtttgtcgcacacataatttccttttcattcttgtatttgatagtatgtcttgtactttattctttccatcttgaatatttcttgtgtaaaatactttttttctttttaatttcctaagttcataaggaaaaactggaagctgtttctcaagtgttgttttctcccccaggatattagcttattctaagccctgtccgaaatgcaaacgacctatagagaagaatcagggatgcatgcatatgacatgcactcctccttgtaaatttgagttttgctggtaagcttccctctcggcatatttgttttgatggtgattgtgtacattttgcattgaaattgtttatctttggtctgattttccatggttgcaggttatgcctaggtgcatggtcagatcatggagatgggactggtggcttttatgcttgcaatcgttatcaatcagcaaagatgggaggcatggtatatttcatcttggatactgtattgtgcaagaagaatcgtgatttttaccttgctagaataagcttttctattgctacctattcatgtgtttgctctagtcttttatactactttgctgtgtatttaatttatttgttttccttcatgccaataatctcttgtaatgttttcctcatgtttcagtatgatgaggctgaagcaaggagagagagagctaaaaattcgcttgagagatacatgcattattatgagcgctgggcgtccaatcaaacagtatgtctaggatccagtcactttacatagtctttatctgattttttatggtattcatgcttctacatgcccttttgattttcatatggaccatgtaatgtgtatagtaagctcattaggttggagacttttagttttgctgactggaaggatctaatttcatgttgctgctgcaaagtacagcgtctggcactaatgtccttggcaaatcagttgtctacttacttttcattttatatttaccatccaatattatgagtggtaaacacatacacagtgctttattttatatttatctttctcatactttcataacaattttccacaatgctgtatatttccattcaattttcgcatacataatgtgaagggtctgccataaatttacattttagctgtacttttatgtatgatacattttctgttttcttttccctgttggcagtcaaggcagaaagcacaagcagatctgcaaaaagttgaaaatgaagatgtaagttttacattggaccatgtgtacagcatttgtgggtcatagcagaagtttgattttattaatacttgtagcaaaactcactgttttggcagtccttttatcagttgtaaatacttttagtttggacttctgtgatgtttcagttttgcgtttgactattttctcatgtgtatagcttacaaagttaagtgatgttgttggtataccagagacccaactaaagttcatacctgaagcttggtcacaggttagatattataaatcattttctattgcccattgactgtttatgtaatttacatgttcattattcgttgtgacagatcatagaatgcaggcgagtgctgaaatggacatatgcttatgggtactatctacacaacaaagcgaagagtgatttttttgtgtacctccaaggtagtagataatttctgccttgccaagtaggcgcttatgcatacttgacggctgtacatgttttaaaatttataggtgaagctgagtctggtttggagcgtcttcataaatgtgccgagaaggatatgcgtgaatttttacctacagcggattccactcaaccttctctttcattgcaagacttcggtgaatttcgtgtgaagctttctggtctaacaaggtattgcagagatatcttcactcatcatcacttcagtgaatttttgtgaatgtatttgccgttaattttgtaatttacttggatctgaagggcacacgcttgctccaaccatcactgttatccttgcagtgtcgcttgcttcatgcatgatgcaaatgtatattttccaaatatccatgaactgctcaatatgtcactatgcagtgccaaatttgcttgatcattttattcactataagacttgcatgtttatgagtatgtacagcaactaagcctttttgagaacatgatctaagctaaatatttcattgcagcgtaacccgcaactacttcgagaaccttgttcaaacactggaagcgggtctgcaggatgtccgcgctacagaccaatcagcttcagtcagtacctccagctccaagaagcctcccaccaacaccaaggggaagtcagggcggagtaaggtggcgagaacatcgcaggagcgctcaggcgacagatggccatgcgaccgctgcactttcatcaacccgtcctctacgaactcatgcaacatgtgcggcaggaacaagccccgccgcagataggaagattggtcaaaatgcagttgtgcaaaggaacaccttctcactgggattctggtcgaacaaagtggtgctcatttggcccaacactctggtgctatgaacatgaagcagactctcccagggatctgatgatgctcagaggagatgtaagaaacgaacaatctcaggaatgcagcgcaagaggcttggacaaaattaggtagtagtaaaacatatatgcgtgtgtgttgttagctgtaaatattacttcatggagaaaattaggaaagtaccagcctggaaaatctgcgagttataaaataggattgcatgtgagaatgacatgtggggtcctcacatgtgattgtatttttcaacttcgtgaattcagctatggttcaaattaaaattggcctgtatggatgagtggttccattaaattggcctttgctgtattctgctctcagattggaaaagcttaactgtttaagtttggtgatttcaattctgacctgtaaattgtcctctatttttttttacagccgtggaaacaaattcttatgagaaagcccattttgccctttgtgcttcagaacatcgagcctacaggacgatgactccacacggatctgacgaccggagctcagatgatgggaggagctggtcaagggcacacttcagcctgcaagtggggtgggtcgacccgttaggtccgtggcccgaacctaaatttgtggcactaataggttttcgggccggcccatattttcttaggtgacaatgggtccaggagtcagttgaccctaggggtttttgggtcggccttgttcgagcgctccgcttgctcgcgttcacatggcggcggcggctttagggctcccggcctgagacggtgcggctccaccgcggatcgagccggcggcggtggctcccggcggaggcggcagcggtggcggcacggctccatcacggatcgaggtggcggcggcggctcccggcggaggcggcggcggtgacagcttcgacttcgcggtgtgctccaccgcgttttgaggcggcggcagctgggcgtgctccttcagtcctcctcccgtctccaactccccccaagactggtactgtggttcacatcatagcaactagcaacggattcttttgttcttgattttctttttcttttctttggttcttgattctttggttcctcttctatgcagttccttctttcggcggcggatggaggcaccggcggacggcggctacctgcttggtggccaaccggcgaggtgctccggaggacactccaccggcagcaacggcgagggtttcggaggacacccggccacatcgccatcttcatctagctgggtttctctccctcgtgagcacaggtatgatttccagatgatgggaggagctggtcaagggcacaccgcacactcgacctgcaggacgatggcaccatgtgctttttgtttttctgaacgaatcggcaaactgccaatttcattgaataaagaatgaagaaaactttacaagtatg More
CDS seq		atgggctccgacgaagacgagctgctcgacgacgaggagtactactactactgcagcgacggggagtgtagcggcggcgggagcgggagcgacgaggatgaggagttcgggggccgcgggagcgacgagggctgtgaggccgacgaggtcgtctccacgcgcgagcagagatatgttgtgttgaccgaagatgatatacgcgagcgacaagaggaaatgataagccgtgtgtctgcaatattttcagttccaagggaatcagcatgcgtcctccttcgtcactacaaatggagtattagcaagctaagtgatgactggttcgcagatgaagaaaatgtccgccgttctgttggcttgccatcaaatgttgttcatgttcctgactgtcctgagctaacttgtggaatatgttttgaaggatgtgctgcaaatgcaatgagctgtgctggttgttcccatttctattgtcatgaatgttgggaagggtatattagtgctgcagtaaatgatggtccagggtgtttggtgttgcagtgccctgaaccatcttgtgatgcaatcgttcttgaagatatgattaatagtctgacgaaagatgaggataaagtaaagtatgcacgatttgtattatggtcatatattggagttaacaacaagataaaatggtgtccagctcctgattgtacctgtgcagttgagtttcttggtgatggtaactatgatgtctcatgcaaatgcaaattcagtttttgctggaattgtgcagaggaagctcatcggccagttagctgtgacacagtctcaaagtggatactaaagaacagcgcagaatctgaaaacatgaattggatattagcttattctaagccctgtccgaaatgcaaacgacctatagagaagaatcagggatgcatgcatatgacatgcactcctccttgtaaatttgagttttgctggttatgcctaggtgcatggtcagatcatggagatgggactggtggcttttatgcttgcaatcgttatcaatcagcaaagatgggaggcatgtatgatgaggctgaagcaaggagagagagagctaaaaattcgcttgagagatacatgcattattatgagcgctgggcgtccaatcaaacatcaaggcagaaagcacaagcagatctgcaaaaagttgaaaatgaagatcttacaaagttaagtgatgttgttggtataccagagacccaactaaagttcatacctgaagcttggtcacagatcatagaatgcaggcgagtgctgaaatggacatatgcttatgggtactatctacacaacaaagcgaagagtgatttttttgtgtacctccaaggtgaagctgagtctggtttggagcgtcttcataaatgtgccgagaaggatatgcgtgaatttttacctacagcggattccactcaaccttctctttcattgcaagacttcggtgaatttcgtgtgaagctttctggtctaacaagcgtaacccgcaactacttcgagaaccttgttcaaacactggaagcgggtctgcaggatgtccgcgctacagaccaatcagcttcagtcagtacctccagctccaagaagcctcccaccaacaccaaggggaagtcagggcggagtaaggtggcgagaacatcgcaggagcgctcaggcgacagatggccatgcgaccgctgcactttcatcaacccgtcctctacgaactcatgcaacatgtgcggcaggaacaagccccgccgcagatag More
Protein seq		MGSDEDELLDDEEYYYYCSDGECSGGGSGSDEDEEFGGRGSDEGCEADEVVSTREQRYVVLTEDDIRERQEEMISRVSAIFSVPRESACVLLRHYKWSISKLSDDWFADEENVRRSVGLPSNVVHVPDCPELTCGICFEGCAANAMSCAGCSHFYCHECWEGYISAAVNDGPGCLVLQCPEPSCDAIVLEDMINSLTKDEDKVKYARFVLWSYIGVNNKIKWCPAPDCTCAVEFLGDGNYDVSCKCKFSFCWNCAEEAHRPVSCDTVSKWILKNSAESENMNWILAYSKPCPKCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGAWSDHGDGTGGFYACNRYQSAKMGGMYDEAEARRERAKNSLERYMHYYERWASNQTSRQKAQADLQKVENEDLTKLSDVVGIPETQLKFIPEAWSQIIECRRVLKWTYAYGYYLHNKAKSDFFVYLQGEAESGLERLHKCAEKDMREFLPTADSTQPSLSLQDFGEFRVKLSGLTSVTRNYFENLVQTLEAGLQDVRATDQSASVSTSSSKKPPTNTKGKSGRSKVARTSQERSGDRWPCDRCTFINPSSTNSCNMCGRNKPRRR
Function		Probable E3 ubiquitin-protein ligase ARI8 [UniProtKB/Swiss-Prot:Q8W468]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsCMeo_09g0016650	OsCMeo_09g0016650.02	Chr09	20079610	20080993	+	NAM
CDS seq	atgcagttgtgcaaaggaacaccttctcactgggattctggtcgaacaaagtggtgctcatttggcccaacactctggtgctatgaacatgaagcagactctcccagggatctgatgatgctcagaggagatggctcccggcctgagacggtgcggctccaccgcggatcgagccggcggcggtggctcccggcggaggcggcagcggtggcggcacggctccatcacggatcgaggtggcggcggcggctcccggcggaggcggcggcggtgacagcttcgacttcgcggtgtgctccaccgcgttttgaggcggcggcagctgggcgtgctccttcagtcctcctcccgtctccaactccccccaagactggtactgtgttccttctttcggcggcggatggaggcaccggcggacggcggctacctgcttggtggccaaccggcgaggtgctccggaggacactccaccggcagcaacggcgagggtttcggaggacacccggccacatcgccatcttcatctag More
Protein seq	MQLCKGTPSHWDSGRTKWCSFGPTLWCYEHEADSPRDLMMLRGDGSRPETVRLHRGSSRRRWLPAEAAAVAARLHHGSRWRRRLPAEAAAVTASTSRCAPPRFEAAAAGRAPSVLLPSPTPPKTGTVFLLSAADGGTGGRRLPAWWPTGEVLRRTLHRQQRRGFRRTPGHIAIFI

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsCMeo_09g0016650	OsCMeo_09g0016650.01	Chr09	20074551	20079798	+	NAM
CDS seq	atgggctccgacgaagacgagctgctcgacgacgaggagtactactactactgcagcgacggggagtgtagcggcggcgggagcgggagcgacgaggatgaggagttcgggggccgcgggagcgacgagggctgtgaggccgacgaggtcgtctccacgcgcgagcagagatatgttgtgttgaccgaagatgatatacgcgagcgacaagaggaaatgataagccgtgtgtctgcaatattttcagttccaagggaatcagcatgcgtcctccttcgtcactacaaatggagtattagcaagctaagtgatgactggttcgcagatgaagaaaatgtccgccgttctgttggcttgccatcaaatgttgttcatgttcctgactgtcctgagctaacttgtggaatatgttttgaaggatgtgctgcaaatgcaatgagctgtgctggttgttcccatttctattgtcatgaatgttgggaagggtatattagtgctgcagtaaatgatggtccagggtgtttggtgttgcagtgccctgaaccatcttgtgatgcaatcgttcttgaagatatgattaatagtctgacgaaagatgaggataaagtaaagtatgcacgatttgtattatggtcatatattggagttaacaacaagataaaatggtgtccagctcctgattgtacctgtgcagttgagtttcttggtgatggtaactatgatgtctcatgcaaatgcaaattcagtttttgctggaattgtgcagaggaagctcatcggccagttagctgtgacacagtctcaaagtggatactaaagaacagcgcagaatctgaaaacatgaattggatattagcttattctaagccctgtccgaaatgcaaacgacctatagagaagaatcagggatgcatgcatatgacatgcactcctccttgtaaatttgagttttgctggttatgcctaggtgcatggtcagatcatggagatgggactggtggcttttatgcttgcaatcgttatcaatcagcaaagatgggaggcatgtatgatgaggctgaagcaaggagagagagagctaaaaattcgcttgagagatacatgcattattatgagcgctgggcgtccaatcaaacatcaaggcagaaagcacaagcagatctgcaaaaagttgaaaatgaagatcttacaaagttaagtgatgttgttggtataccagagacccaactaaagttcatacctgaagcttggtcacagatcatagaatgcaggcgagtgctgaaatggacatatgcttatgggtactatctacacaacaaagcgaagagtgatttttttgtgtacctccaaggtgaagctgagtctggtttggagcgtcttcataaatgtgccgagaaggatatgcgtgaatttttacctacagcggattccactcaaccttctctttcattgcaagacttcggtgaatttcgtgtgaagctttctggtctaacaagcgtaacccgcaactacttcgagaaccttgttcaaacactggaagcgggtctgcaggatgtccgcgctacagaccaatcagcttcagtcagtacctccagctccaagaagcctcccaccaacaccaaggggaagtcagggcggagtaaggtggcgagaacatcgcaggagcgctcaggcgacagatggccatgcgaccgctgcactttcatcaacccgtcctctacgaactcatgcaacatgtgcggcaggaacaagccccgccgcagatag More
Protein seq	MGSDEDELLDDEEYYYYCSDGECSGGGSGSDEDEEFGGRGSDEGCEADEVVSTREQRYVVLTEDDIRERQEEMISRVSAIFSVPRESACVLLRHYKWSISKLSDDWFADEENVRRSVGLPSNVVHVPDCPELTCGICFEGCAANAMSCAGCSHFYCHECWEGYISAAVNDGPGCLVLQCPEPSCDAIVLEDMINSLTKDEDKVKYARFVLWSYIGVNNKIKWCPAPDCTCAVEFLGDGNYDVSCKCKFSFCWNCAEEAHRPVSCDTVSKWILKNSAESENMNWILAYSKPCPKCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGAWSDHGDGTGGFYACNRYQSAKMGGMYDEAEARRERAKNSLERYMHYYERWASNQTSRQKAQADLQKVENEDLTKLSDVVGIPETQLKFIPEAWSQIIECRRVLKWTYAYGYYLHNKAKSDFFVYLQGEAESGLERLHKCAEKDMREFLPTADSTQPSLSLQDFGEFRVKLSGLTSVTRNYFENLVQTLEAGLQDVRATDQSASVSTSSSKKPPTNTKGKSGRSKVARTSQERSGDRWPCDRCTFINPSSTNSCNMCGRNKPRRR More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsCMeo_09g0016650	OsCMeo_09g0016650.03	Chr09	20080419	20081117	+	IsoSeq
CDS seq	tcgcgttcacatggcggcggcggctttagggctcccggcctgagacggtgcggctccaccgcggatcgagccggcggcggtggctcccggcggaggcggcagcggtggcggcacggctccatcacggatcgaggtggcggcggcggctcccggcggaggcggcgg
Protein seq	SRSHGGGGFRAPGLRRCGSTADRAGGGGSRRRRQRWRHGSITDRGGGGGSRRRRR

Event Type	Chromosome	Start	End	Strand	Alternative mRNAs	Total mRNAs	Source
A5	Chr09	20080689	20080792	+	OsCMeo_09g0016650.02	OsCMeo_09g0016650.03,OsCMeo_09g0016650.02	All

Expression

	Leaf	Root	Panicle
FPKM	1.248397	0.0	7.926042

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_09g0513800	RBH	1.383984	0.992819	3.554820
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os09g33876	RBH	0.945471	0.671432	0.923585
Nipponbare \| IRGSP 1.0 \| RAP-db	Os09g0513800	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_09g0016410	RBH	0.166827	2.358818	2.570493
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_09g0016400	RBH	0.259548	0.000000	3.297464
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_08g0023670	RBH	6.337788	26.478653	35.787296
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_09g0016390	RBH	0.192617	0.021371	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_09g0016520	RBH	0.998733	0.0	1.349353
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_09G0336600	RBH	1.321257	2.163985	4.7091425
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_09g0016390	RBH	0.046184	0.0	0.182284
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_09G0323700	RBH	6.22613	5.849644	2.69864
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_09g0016390	RBH	0.0	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_09g0016200	RBH	0.000000	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_09g0016300	RBH	4.169472	0.000000	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_09g0016150	RBH	0.131975	0.0	0.109885
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_09g0016280	RBH	0.059932	0.703890	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_09G016710	RBH	0.497135	0.000000	0.960938
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_09g0016510	RBH	0.134934	0.0	2.804890

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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