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
OsNip_08g0126000		OGI:08003690 \| 16/16			Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)			Chr08:1510719-1512998		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		ATGGCGACGACGAGGGTTCGGTGCAGCGCCTGCCTCCACGAGTTTGACCTCTGCGTCGCCGGCGCCGGCGCCAACGTCTGCTCGACGTGCAAAAGGCCATGGACCAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCCCCTCGCCCTTCGCGACGTCCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCCCCTCGCCCTTCGCGACGTCCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCACCTCGCCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGCCCTTCGCGACGTCCTCATCCGTGAACGCGCCGCCACAGCCCGCCCATGGAACGACCACGAGCGGCTTGTTTGGACGATCTGGGCCACCGCCGCCGTGGAGCTCGTCGGCGACGAGCTTGCCAAGGAGGCCACTGACTTCGTGCTGGCCGCCGGCGCCATCACCAGTACCAGTCCAGACGCCGCCGGTGGCCTATCCAGCACAGCCATCGGTTTTTGCGACGCCCTTCAGGAGGGTCACGGAGGAGGGCCACGCGTACGACGACAACGAGCCGGTGGAGTCGCCGGCGTCGAGGGGGGGGGGCGAACCAGGTGGCGGCGAGGCCGCGGCAAACGATGGGGAGCTCGTCGTCATCAAGACGCACTGCGAGTTCCCGGCCATCGCGCGGAGCACGCCAAGGGACAACTTCGCCGTTCTCCTCCACGTCAAGGCTCCTAGCATCGCCGCGGAGGCGGCGCCGGCGCGCGCGTCGGTCGACCTCGTCACGGTGCTCGACGTGAGCGGCAGCATGGAAGGCTACAAGCTCGCGCTACTGAAGCGCGCCATGGGGTTGCTCGGCCCCGGCGACCGCCTTGCCGTCGTGTCCTTCTCCTACAGTGCGCGGCGAGTGATCCGGCTGACGCGGATGTCGGAGGGCGGCAAGGCGTCGGCCAAGAGCGCCGTGGAGTCCCTCCATGCGGACGGCTGCACGAACATCCTCGAGGGCCTTGTCGAAGCCGCCAAGGTGTTCGACGGCCGCCGCTACCGGAACGCCGTCGCCAGCGTCATCCTTCTCTCCGACGGTCAAGACAATTACAATGTCAACGGCGGGTGGGGCGCCTCGAACTCGAAGAACTACAGTGTTCTCGTGCCGCCTTCCTTCAAGCGCTCCGGCGACCGGCGCCTCCCGGTCCACACGTTCGGCTTCGGCACCGACCACGACGCGTCGGCGATGCACACCATCGCGGAGGAGACCGGCGGCACGTTCTCCTTCATCGAGAACCAGGCCGTCGTCCAGGACGCGTTCGCGCAGTGCATCGGCGGCCTCCTCTCGGTCCCCGTGCAGGAGGCGCGCATCGCCATCACCTGCCCGCACGCCGCCGTGCGCGTCAGGTCTGTCAACTCCGGCCGCTACGACAGCGTCATTGACGGGGACGGCCGGGCCGCGTCGGTGGACGTCGGCGAGCTCTACGCCGACGAGGAGAGGCGTTTCTTGGTGTTCGTGGACGTGCCAGCAGCCGGCGCCGGGGAAGACGTCACAGAACTGATCAAGGTGAGCTGCACATACCGCGACACCGCGAGTCGGCAGCAGATGGTCGTCGCCGGCGAGGACGCCGTCGTGCAAAGGCCAGCGGAGGTGAGCACCAGCACGGAGCCGTCGATGGAGGTGGAGCGGGAGCGCTTCTGCGTGGAGGCAACCGAAGACATCGCGGCGGCGCGGGAAGCCGCCGAGCGCGGCGCGTACGCGGCAGCGAAGGCGATACTCGACCGCCGGCAGGAGGCGCTCGCCCGGTCGGCGCGGCGGCTCGCCGGCGACGCCAGGTGCGCGGCGCTGGTGTCGGAGCTGCGCGAGCTGAGCGCCCGCGTGGCGAACAGGCGGGAGTACGAGCAGACCGGGCGCGCGTGCATGCTCGCCGGCATGAGCTCGCACGCACAGCAGCGCGCCACGTCGGTGCAGCTGTTCTCGCCGGCGTCGGCGCTTTCCTCCGGCGCCGTGCCATTTGGTTACTCGACGCCGGCGATGCAGAGCATGGTGGAGTCGTCGCGGAAGGCACGAGAGAGCGGCAGCGGGGGCAACTGAAGCTGA More
CDS seq		ATGGCGACGACGAGGGTTCGGTGCAGCGCCTGCCTCCACGAGTTTGACCTCTGCGTCGCCGGCGCCGGCGCCAACGTCTGCTCGACGTGCAAAAGGCCATGGACCAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCCCCTCGCCCTTCGCGACGTCCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCCCCTCGCCCTTCGCGACGTCCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCACCTCGCCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGCCCTTCGCGACGTCCTCATCCGTGAACGCGCCGCCACAGCCCGCCCATGGAACGACCACGAGCGGCTTGTTTGGACGATCTGGGCCACCGCCGCCGTGGAGCTCGTCGGCGACGAGCTTGCCAAGGAGGCCACTGACTTCGTGCTGGCCGCCGGCGCCATCACCAGTACCAGTCCAGACGCCGCCGGTGGCCTATCCAGCACAGCCATCGGTTTTTGCGACGCCCTTCAGGAGGGTCACGGAGGAGGGCCACGCGTACGACGACAACGAGCCGGTGGAGTCGCCGGCGTCGAGGGGGGGGGGCGAACCAGGTGGCGGCGAGGCCGCGGCAAACGATGGGGAGCTCGTCGTCATCAAGACGCACTGCGAGTTCCCGGCCATCGCGCGGAGCACGCCAAGGGACAACTTCGCCGTTCTCCTCCACGTCAAGGCTCCTAGCATCGCCGCGGAGGCGGCGCCGGCGCGCGCGTCGGTCGACCTCGTCACGGTGCTCGACGTGAGCGGCAGCATGGAAGGCTACAAGCTCGCGCTACTGAAGCGCGCCATGGGGTTGCTCGGCCCCGGCGACCGCCTTGCCGTCGTGTCCTTCTCCTACAGTGCGCGGCGAGTGATCCGGCTGACGCGGATGTCGGAGGGCGGCAAGGCGTCGGCCAAGAGCGCCGTGGAGTCCCTCCATGCGGACGGCTGCACGAACATCCTCGAGGGCCTTGTCGAAGCCGCCAAGGTGTTCGACGGCCGCCGCTACCGGAACGCCGTCGCCAGCGTCATCCTTCTCTCCGACGGTCAAGACAATTACAATGTCAACGGCGGGTGGGGCGCCTCGAACTCGAAGAACTACAGTGTTCTCGTGCCGCCTTCCTTCAAGCGCTCCGGCGACCGGCGCCTCCCGGTCCACACGTTCGGCTTCGGCACCGACCACGACGCGTCGGCGATGCACACCATCGCGGAGGAGACCGGCGGCACGTTCTCCTTCATCGAGAACCAGGCCGTCGTCCAGGACGCGTTCGCGCAGTGCATCGGCGGCCTCCTCTCGGTCCCCGTGCAGGAGGCGCGCATCGCCATCACCTGCCCGCACGCCGCCGTGCGCGTCAGGTCTGTCAACTCCGGCCGCTACGACAGCGTCATTGACGGGGACGGCCGGGCCGCGTCGGTGGACGTCGGCGAGCTCTACGCCGACGAGGAGAGGCGTTTCTTGGTGTTCGTGGACGTGCCAGCAGCCGGCGCCGGGGAAGACGTCACAGAACTGATCAAGGTGAGCTGCACATACCGCGACACCGCGAGTCGGCAGCAGATGGTCGTCGCCGGCGAGGACGCCGTCGTGCAAAGGCCAGCGGAGGTGAGCACCAGCACGGAGCCGTCGATGGAGGTGGAGCGGGAGCGCTTCTGCGTGGAGGCAACCGAAGACATCGCGGCGGCGCGGGAAGCCGCCGAGCGCGGCGCGTACGCGGCAGCGAAGGCGATACTCGACCGCCGGCAGGAGGCGCTCGCCCGGTCGGCGCGGCGGCTCGCCGGCGACGCCAGGTGCGCGGCGCTGGTGTCGGAGCTGCGCGAGCTGAGCGCCCGCGTGGCGAACAGGCGGGAGTACGAGCAGACCGGGCGCGCGTGCATGCTCGCCGGCATGAGCTCGCACGCACAGCAGCGCGCCACGTCGGTGCAGCTGTTCTCGCCGGCGTCGGCGCTTTCCTCCGGCGCCGTGCCATTTGGTTACTCGACGCCGGCGATGCAGAGCATGGTGGAGTCGTCGCGGAAGGCACGAGAGAGCGGCAGCGGGGGCAACTGA More
Protein seq		MATTRVRCSACLHEFDLCVAGAGANVCSTCKRPWTNPPPAASSASSTLSFATFSSVNPPPAASSPSPFATSSSVNPPPAASSASSTLSFATFSSVNPPPAASSPSPFATSSSVNPPPAASSASSTLSFATFSSVNPPPAASSTSPFATFSSVNPPPAASSASSTLPFATSSSVNAPPQPAHGTTTSGLFGRSGPPPPWSSSATSLPRRPLTSCWPPAPSPVPVQTPPVAYPAQPSVFATPFRRVTEEGHAYDDNEPVESPASRGGGEPGGGEAAANDGELVVIKTHCEFPAIARSTPRDNFAVLLHVKAPSIAAEAAPARASVDLVTVLDVSGSMEGYKLALLKRAMGLLGPGDRLAVVSFSYSARRVIRLTRMSEGGKASAKSAVESLHADGCTNILEGLVEAAKVFDGRRYRNAVASVILLSDGQDNYNVNGGWGASNSKNYSVLVPPSFKRSGDRRLPVHTFGFGTDHDASAMHTIAEETGGTFSFIENQAVVQDAFAQCIGGLLSVPVQEARIAITCPHAAVRVRSVNSGRYDSVIDGDGRAASVDVGELYADEERRFLVFVDVPAAGAGEDVTELIKVSCTYRDTASRQQMVVAGEDAVVQRPAEVSTSTEPSMEVERERFCVEATEDIAAAREAAERGAYAAAKAILDRRQEALARSARRLAGDARCAALVSELRELSARVANRREYEQTGRACMLAGMSSHAQQRATSVQLFSPASALSSGAVPFGYSTPAMQSMVESSRKARESGSGGN
Function		E3 ubiquitin-protein ligase WAV3 [UniProtKB/Swiss-Prot:Q9LTA6]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsNip_08g0126000	OsNip_08t0126000-00	Chr08	1510719	1512998	+	RAP2018-11-26
CDS seq	ATGGCGACGACGAGGGTTCGGTGCAGCGCCTGCCTCCACGAGTTTGACCTCTGCGTCGCCGGCGCCGGCGCCAACGTCTGCTCGACGTGCAAAAGGCCATGGACCAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCCCCTCGCCCTTCGCGACGTCCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCCCCTCGCCCTTCGCGACGTCCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGTCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGAGCACCTCGCCCTTCGCGACGTTCTCATCCGTGAACCCGCCGCCCGCGGCGTCGTCGGCGTCGAGCACCTTGCCCTTCGCGACGTCCTCATCCGTGAACGCGCCGCCACAGCCCGCCCATGGAACGACCACGAGCGGCTTGTTTGGACGATCTGGGCCACCGCCGCCGTGGAGCTCGTCGGCGACGAGCTTGCCAAGGAGGCCACTGACTTCGTGCTGGCCGCCGGCGCCATCACCAGTACCAGTCCAGACGCCGCCGGTGGCCTATCCAGCACAGCCATCGGTTTTTGCGACGCCCTTCAGGAGGGTCACGGAGGAGGGCCACGCGTACGACGACAACGAGCCGGTGGAGTCGCCGGCGTCGAGGGGGGGGGGCGAACCAGGTGGCGGCGAGGCCGCGGCAAACGATGGGGAGCTCGTCGTCATCAAGACGCACTGCGAGTTCCCGGCCATCGCGCGGAGCACGCCAAGGGACAACTTCGCCGTTCTCCTCCACGTCAAGGCTCCTAGCATCGCCGCGGAGGCGGCGCCGGCGCGCGCGTCGGTCGACCTCGTCACGGTGCTCGACGTGAGCGGCAGCATGGAAGGCTACAAGCTCGCGCTACTGAAGCGCGCCATGGGGTTGCTCGGCCCCGGCGACCGCCTTGCCGTCGTGTCCTTCTCCTACAGTGCGCGGCGAGTGATCCGGCTGACGCGGATGTCGGAGGGCGGCAAGGCGTCGGCCAAGAGCGCCGTGGAGTCCCTCCATGCGGACGGCTGCACGAACATCCTCGAGGGCCTTGTCGAAGCCGCCAAGGTGTTCGACGGCCGCCGCTACCGGAACGCCGTCGCCAGCGTCATCCTTCTCTCCGACGGTCAAGACAATTACAATGTCAACGGCGGGTGGGGCGCCTCGAACTCGAAGAACTACAGTGTTCTCGTGCCGCCTTCCTTCAAGCGCTCCGGCGACCGGCGCCTCCCGGTCCACACGTTCGGCTTCGGCACCGACCACGACGCGTCGGCGATGCACACCATCGCGGAGGAGACCGGCGGCACGTTCTCCTTCATCGAGAACCAGGCCGTCGTCCAGGACGCGTTCGCGCAGTGCATCGGCGGCCTCCTCTCGGTCCCCGTGCAGGAGGCGCGCATCGCCATCACCTGCCCGCACGCCGCCGTGCGCGTCAGGTCTGTCAACTCCGGCCGCTACGACAGCGTCATTGACGGGGACGGCCGGGCCGCGTCGGTGGACGTCGGCGAGCTCTACGCCGACGAGGAGAGGCGTTTCTTGGTGTTCGTGGACGTGCCAGCAGCCGGCGCCGGGGAAGACGTCACAGAACTGATCAAGGTGAGCTGCACATACCGCGACACCGCGAGTCGGCAGCAGATGGTCGTCGCCGGCGAGGACGCCGTCGTGCAAAGGCCAGCGGAGGTGAGCACCAGCACGGAGCCGTCGATGGAGGTGGAGCGGGAGCGCTTCTGCGTGGAGGCAACCGAAGACATCGCGGCGGCGCGGGAAGCCGCCGAGCGCGGCGCGTACGCGGCAGCGAAGGCGATACTCGACCGCCGGCAGGAGGCGCTCGCCCGGTCGGCGCGGCGGCTCGCCGGCGACGCCAGGTGCGCGGCGCTGGTGTCGGAGCTGCGCGAGCTGAGCGCCCGCGTGGCGAACAGGCGGGAGTACGAGCAGACCGGGCGCGCGTGCATGCTCGCCGGCATGAGCTCGCACGCACAGCAGCGCGCCACGTCGGTGCAGCTGTTCTCGCCGGCGTCGGCGCTTTCCTCCGGCGCCGTGCCATTTGGTTACTCGACGCCGGCGATGCAGAGCATGGTGGAGTCGTCGCGGAAGGCACGAGAGAGCGGCAGCGGGGGCAACTGA More
Protein seq	MATTRVRCSACLHEFDLCVAGAGANVCSTCKRPWTNPPPAASSASSTLSFATFSSVNPPPAASSPSPFATSSSVNPPPAASSASSTLSFATFSSVNPPPAASSPSPFATSSSVNPPPAASSASSTLSFATFSSVNPPPAASSTSPFATFSSVNPPPAASSASSTLPFATSSSVNAPPQPAHGTTTSGLFGRSGPPPPWSSSATSLPRRPLTSCWPPAPSPVPVQTPPVAYPAQPSVFATPFRRVTEEGHAYDDNEPVESPASRGGGEPGGGEAAANDGELVVIKTHCEFPAIARSTPRDNFAVLLHVKAPSIAAEAAPARASVDLVTVLDVSGSMEGYKLALLKRAMGLLGPGDRLAVVSFSYSARRVIRLTRMSEGGKASAKSAVESLHADGCTNILEGLVEAAKVFDGRRYRNAVASVILLSDGQDNYNVNGGWGASNSKNYSVLVPPSFKRSGDRRLPVHTFGFGTDHDASAMHTIAEETGGTFSFIENQAVVQDAFAQCIGGLLSVPVQEARIAITCPHAAVRVRSVNSGRYDSVIDGDGRAASVDVGELYADEERRFLVFVDVPAAGAGEDVTELIKVSCTYRDTASRQQMVVAGEDAVVQRPAEVSTSTEPSMEVERERFCVEATEDIAAAREAAERGAYAAAKAILDRRQEALARSARRLAGDARCAALVSELRELSARVANRREYEQTGRACMLAGMSSHAQQRATSVQLFSPASALSSGAVPFGYSTPAMQSMVESSRKARESGSGGN More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.0	0.0	0.0

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_08g0126100	RBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os08g03260	RBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| RAP-db	Os08g0126000	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_08g0001780	RBH	0.0	0.0	0.000000
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_08g0001790	RBH	0.0	0.0	0.0
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_08g0001820	RBH	0.0	0.0	0.0
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_08g0001730	RBH	0.0	0.018644	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_08g0001610	RBH	0.0	0.0	0.0
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_08G0021500	RBH	0.012441	0	0.000884
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_08g0001500	RBH	0.0	0.0	0.0
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_08G0022800	RBH	0.003577	0.0041065	0.2050705
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_08g0001720	RBH	0.0	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_08g0001700	RBH	0.0	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_08g0001590	RBH	0.0	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_08g0001680	RBH	0.0	0.0	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_08g0001650	SBH	0.0	0.0	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_08G001750	RBH	0.0	0.0	0.0
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_08g0001620	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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