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
OsN22_05G001930		OGI:05004670 \| 16/16			N22 \| OsN22RS2 \| Gramene(+IsoSeq)			Chr05:1417546-1420393		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		OsCRR3, CCR3
DNA seq		AATCCGCGCCTTCCTCTCACAAGTCTCCTCTTCTTCTACGTACTCTCCTTCCCCCGCGCAGCCGTACACGACTCCCGATGAGATGACGGCCACCGCCGCCGTCGTCGCCGCCCGCCTCATCCAATGACCCCGCTCCTCCTCCTCCTCCTCCTCCCCCTCCTCCTCGCCCCGGCCTCCGCCTCCACCGTCGCCATCGCCGCCGGCCCCACCGCCTGCGCCGTCGCGGAGGGAAACTCCACCGTCTACTGCGCCTCCGCCACCAACTCGTCCTCCTCCGCCGCCGTCGCGCCGTTCGTCAGCTTCTCCCAGGTGTCCGGCGGCGGGGGGGCGTTCGTCTGCGGGCTGCAGGTCGGGGGGCGCGCGCTCTTCTGCTGGCCCGCCGCGGCGCCGGGTCAGCTCAGGCGGGTGTACAACGGCCCGGGCCAGCTGTCACAGCTCGCCGTCGGGGGCGGCCATGTCGCGGCGTACGACACCGCGGCGCGGGTGATACGGTGGTGGCGTGGCGGGGACCGGTTCCCTCTCTGGTTCGGCGGTGGGTTCGCCTCCCTCGTCTCCGGCGACGACTTCACCTGCGCCGTGGAGACGAGCACCTCCGCCGTCCGGTGCTGGGGCCCGCGCGGCGGCGCCGTGGAGGCGGGTTTTCTCAACGCCTCCGTCTCCGCCCTCGCCGCGGGAGGTTCCCGCGCGTGCGGGGTGAGGAGGAACGACGGCGGCGTGCTCTGCTCCGGCGGTGGCGTGCTCGCGCCGCGCGAGGACCTGTACGTGGACGGCCTGGCCGTCGGCGACTCCCACGCGTGCGGCCTCCTCCGGCCGAACCACACCGCCGCGTGCTGGAGCCTCGGGGGCGCCACCACCACGCTCTACTACCCGGCGGTCGGCACGGCGTTCGAGCTCCTCGTCGCCGGCGGTAACCTCACGTGCGGCCTCGTGTCGGCCAACTTCAGCCTGCTCTGCTGGTCGAGGGATGGGTTGGTGGCGGCGGAGGTGAACCTGCCGCCGATCCTCCCCGGCGTCTGCGTCTCCGACAACAGCTCGTGCAAATGCGGCCCGCTCCCGGACTCCGGGAGGTTCTGCAAGGTCTCCGGCGACGTCATCTGCAGAAGGTTCTGTGACACGTCGCCGCCGCCGCCGCCGTCTCCTCGTACGCCGTCGCCGCCGGCGACCCCGAGCTCGAGACGCGGCGTGTCCAAAGGCTGGATCGCGTTCGCCGTCGTCGGCGCGGTGGGCTGCTTCGCGGGGCTCTGCTCCATCGTCTACTGCCTCCTCTTCGGCTTCTGCAGCCACAAGAAGGTGCACAACTCTGTCCAGCCCAACATCGCCAGCAACAACAACGGCGGCGGCGGCGGCGGCGCCGCCGCAGCTGTCGGCAGTGGCGCGCCGAGCCCGTACGGGTCGCCGAACGGGTCGCTCGGCCGCCTGCGGCGGCAGCTGTCGCGCGTGATGACGCGGCAGCGGAGCGGGCCGTCGTCGTTCAAGGACCCCGCCGAGGAGTTCACCTTCGCGCAGCTCGCGGCGGCGACCAAGGACTTCGCGGCGGAGGCCAAGATCGGGGAGGGGAGCTTCGGGACGGTGTACCGCGGCAAGCTCCCCGACGGGCGGGAGGTGGCCATCAAGCGCGGCGAGTCGGGGCCGCGCGCGCGCAAGTTCCAGGAGAAGGAGACGGCGTTCCGGTCGGAGCTGGCCTTCCTCTCGCGGCTCCACCACAAGCACCTCGTCGGCTTCGTCGGCTACTGCGAGGAGAGCGACGAGCGGCTGCTGGTCTACGAGTACATGAAGAACGGCGCGCTCTACGACCACCTCCACCCCAAGCCCAACGGCTCGTCCTCGCCGTCCCCGTCGCCGGTGGCCACGTCGTGGAAGCTGCGCATCAAGATCCTGCTCGACGCGTCGCGCGGCATCGACTACCTCCACTCGTACGCCGTGCCGCCGATCATCCACCGCGACATCAAGTCGTCGAACATCCTGCTCGACGGCAGCTGGGTGGCGCGCGTGTCGGACTTCGGGCTGTCGCTGATGGGGCCGGAGACGGAGGAGGTGAAGCACCTGTCGATGAAGGCCGCCGGGACGGTGGGGTACATGGACCCGGAGTACTACGGCCTCCACCACCTCACCGTCAAGAGCGACGTCTACGGCTTCGGCGTCGTCATGCTCGAGGCGCTCACCGGGAAGCGCGCCATCTTCAAGGAGGCCGAGGGCGGGAGCCCCGTCAGCGTGGTGGACTACGCCGTCCCCAGCATCGTCGCCGGCGAGCTCAGCAAGGTGCTCGACGCCCGCGCGCCGGAGCCGAACGCGCACGAGGCCGAGGCCGTCGAGCTGGTCGCCTACACGGCGGTGCACTGCGTCCGGCTGGAGGGGAAGGACCGGCCGGCGATGGCGGACATCGTGGCCAACCTCGAGACGGCGGTGGCGCTCTGCGAGGACAGCGCCACCGGCGGCGGCGCCGCCGGCCATGGCAACAGCTCGTCCAGCGCCAGCCTCTCCATCACGTCCATGGAGTTGAGTAGGATGGATTGATTGAGATTAGTAGCTTCCCTAATTCAAATCCAGAGTTTCAAATTGTGATTAGCCCCGGAAGGAGATTTTAAAATTTGTTGCTTCACTTCATTTTTTTTAGAGGAGAACATCATTTGTGTGATTCTCTCACACATTTTGTTCATGGTGGCTGTACATGATTTTGTATTGAACTGATTTCTCTTTTCATAGATGAGAAAATTTCTCTCTTTTTTTTTCTACTACAAACATTCAACAAGAAACCAACCACATTGATTTCATTCAATTCTTTCGATAATGGAAGCATAAGTGCATAACTAATTCTTTCGATAATGGAAGCATAACTTCTTGCCTCTGC More
CDS seq		ATGACCCCGCTCCTCCTCCTCCTCCTCCTCCCCCTCCTCCTCGCCCCGGCCTCCGCCTCCACCGTCGCCATCGCCGCCGGCCCCACCGCCTGCGCCGTCGCGGAGGGAAACTCCACCGTCTACTGCGCCTCCGCCACCAACTCGTCCTCCTCCGCCGCCGTCGCGCCGTTCGTCAGCTTCTCCCAGGTGTCCGGCGGCGGGGGGGCGTTCGTCTGCGGGCTGCAGGTCGGGGGGCGCGCGCTCTTCTGCTGGCCCGCCGCGGCGCCGGGTCAGCTCAGGCGGGTGTACAACGGCCCGGGCCAGCTGTCACAGCTCGCCGTCGGGGGCGGCCATGTCGCGGCGTACGACACCGCGGCGCGGGTGATACGGTGGTGGCGTGGCGGGGACCGGTTCCCTCTCTGGTTCGGCGGTGGGTTCGCCTCCCTCGTCTCCGGCGACGACTTCACCTGCGCCGTGGAGACGAGCACCTCCGCCGTCCGGTGCTGGGGCCCGCGCGGCGGCGCCGTGGAGGCGGGTTTTCTCAACGCCTCCGTCTCCGCCCTCGCCGCGGGAGGTTCCCGCGCGTGCGGGGTGAGGAGGAACGACGGCGGCGTGCTCTGCTCCGGCGGTGGCGTGCTCGCGCCGCGCGAGGACCTGTACGTGGACGGCCTGGCCGTCGGCGACTCCCACGCGTGCGGCCTCCTCCGGCCGAACCACACCGCCGCGTGCTGGAGCCTCGGGGGCGCCACCACCACGCTCTACTACCCGGCGGTCGGCACGGCGTTCGAGCTCCTCGTCGCCGGCGGTAACCTCACGTGCGGCCTCGTGTCGGCCAACTTCAGCCTGCTCTGCTGGTCGAGGGATGGGTTGGTGGCGGCGGAGGTGAACCTGCCGCCGATCCTCCCCGGCGTCTGCGTCTCCGACAACAGCTCGTGCAAATGCGGCCCGCTCCCGGACTCCGGGAGGTTCTGCAAGGTCTCCGGCGACGTCATCTGCAGAAGGTTCTGTGACACGTCGCCGCCGCCGCCGCCGTCTCCTCGTACGCCGTCGCCGCCGGCGACCCCGAGCTCGAGACGCGGCGTGTCCAAAGGCTGGATCGCGTTCGCCGTCGTCGGCGCGGTGGGCTGCTTCGCGGGGCTCTGCTCCATCGTCTACTGCCTCCTCTTCGGCTTCTGCAGCCACAAGAAGGTGCACAACTCTGTCCAGCCCAACATCGCCAGCAACAACAACGGCGGCGGCGGCGGCGGCGCCGCCGCAGCTGTCGGCAGTGGCGCGCCGAGCCCGTACGGGTCGCCGAACGGGTCGCTCGGCCGCCTGCGGCGGCAGCTGTCGCGCGTGATGACGCGGCAGCGGAGCGGGCCGTCGTCGTTCAAGGACCCCGCCGAGGAGTTCACCTTCGCGCAGCTCGCGGCGGCGACCAAGGACTTCGCGGCGGAGGCCAAGATCGGGGAGGGGAGCTTCGGGACGGTGTACCGCGGCAAGCTCCCCGACGGGCGGGAGGTGGCCATCAAGCGCGGCGAGTCGGGGCCGCGCGCGCGCAAGTTCCAGGAGAAGGAGACGGCGTTCCGGTCGGAGCTGGCCTTCCTCTCGCGGCTCCACCACAAGCACCTCGTCGGCTTCGTCGGCTACTGCGAGGAGAGCGACGAGCGGCTGCTGGTCTACGAGTACATGAAGAACGGCGCGCTCTACGACCACCTCCACCCCAAGCCCAACGGCTCGTCCTCGCCGTCCCCGTCGCCGGTGGCCACGTCGTGGAAGCTGCGCATCAAGATCCTGCTCGACGCGTCGCGCGGCATCGACTACCTCCACTCGTACGCCGTGCCGCCGATCATCCACCGCGACATCAAGTCGTCGAACATCCTGCTCGACGGCAGCTGGGTGGCGCGCGTGTCGGACTTCGGGCTGTCGCTGATGGGGCCGGAGACGGAGGAGGTGAAGCACCTGTCGATGAAGGCCGCCGGGACGGTGGGGTACATGGACCCGGAGTACTACGGCCTCCACCACCTCACCGTCAAGAGCGACGTCTACGGCTTCGGCGTCGTCATGCTCGAGGCGCTCACCGGGAAGCGCGCCATCTTCAAGGAGGCCGAGGGCGGGAGCCCCGTCAGCGTGGTGGACTACGCCGTCCCCAGCATCGTCGCCGGCGAGCTCAGCAAGGTGCTCGACGCCCGCGCGCCGGAGCCGAACGCGCACGAGGCCGAGGCCGTCGAGCTGGTCGCCTACACGGCGGTGCACTGCGTCCGGCTGGAGGGGAAGGACCGGCCGGCGATGGCGGACATCGTGGCCAACCTCGAGACGGCGGTGGCGCTCTGCGAGGACAGCGCCACCGGCGGCGGCGCCGCCGGCCATGGCAACAGCTCGTCCAGCGCCAGCCTCTCCATCACGTCCATGGAGTTGAGTAGGATGGATTGA More
Protein seq		MTPLLLLLLLPLLLAPASASTVAIAAGPTACAVAEGNSTVYCASATNSSSSAAVAPFVSFSQVSGGGGAFVCGLQVGGRALFCWPAAAPGQLRRVYNGPGQLSQLAVGGGHVAAYDTAARVIRWWRGGDRFPLWFGGGFASLVSGDDFTCAVETSTSAVRCWGPRGGAVEAGFLNASVSALAAGGSRACGVRRNDGGVLCSGGGVLAPREDLYVDGLAVGDSHACGLLRPNHTAACWSLGGATTTLYYPAVGTAFELLVAGGNLTCGLVSANFSLLCWSRDGLVAAEVNLPPILPGVCVSDNSSCKCGPLPDSGRFCKVSGDVICRRFCDTSPPPPPSPRTPSPPATPSSRRGVSKGWIAFAVVGAVGCFAGLCSIVYCLLFGFCSHKKVHNSVQPNIASNNNGGGGGGAAAAVGSGAPSPYGSPNGSLGRLRRQLSRVMTRQRSGPSSFKDPAEEFTFAQLAAATKDFAAEAKIGEGSFGTVYRGKLPDGREVAIKRGESGPRARKFQEKETAFRSELAFLSRLHHKHLVGFVGYCEESDERLLVYEYMKNGALYDHLHPKPNGSSSPSPSPVATSWKLRIKILLDASRGIDYLHSYAVPPIIHRDIKSSNILLDGSWVARVSDFGLSLMGPETEEVKHLSMKAAGTVGYMDPEYYGLHHLTVKSDVYGFGVVMLEALTGKRAIFKEAEGGSPVSVVDYAVPSIVAGELSKVLDARAPEPNAHEAEAVELVAYTAVHCVRLEGKDRPAMADIVANLETAVALCEDSATGGGAAGHGNSSSSASLSITSMELSRMD
Function		Putative serine/threonine-protein kinase-like protein CCR3 [UniProtKB/Swiss-Prot:Q9LY50]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsN22_05G001930	OsN22_05G001930_01	Chr05	1417546	1420393	+	NAM
CDS seq	ATGACCCCGCTCCTCCTCCTCCTCCTCCTCCCCCTCCTCCTCGCCCCGGCCTCCGCCTCCACCGTCGCCATCGCCGCCGGCCCCACCGCCTGCGCCGTCGCGGAGGGAAACTCCACCGTCTACTGCGCCTCCGCCACCAACTCGTCCTCCTCCGCCGCCGTCGCGCCGTTCGTCAGCTTCTCCCAGGTGTCCGGCGGCGGGGGGGCGTTCGTCTGCGGGCTGCAGGTCGGGGGGCGCGCGCTCTTCTGCTGGCCCGCCGCGGCGCCGGGTCAGCTCAGGCGGGTGTACAACGGCCCGGGCCAGCTGTCACAGCTCGCCGTCGGGGGCGGCCATGTCGCGGCGTACGACACCGCGGCGCGGGTGATACGGTGGTGGCGTGGCGGGGACCGGTTCCCTCTCTGGTTCGGCGGTGGGTTCGCCTCCCTCGTCTCCGGCGACGACTTCACCTGCGCCGTGGAGACGAGCACCTCCGCCGTCCGGTGCTGGGGCCCGCGCGGCGGCGCCGTGGAGGCGGGTTTTCTCAACGCCTCCGTCTCCGCCCTCGCCGCGGGAGGTTCCCGCGCGTGCGGGGTGAGGAGGAACGACGGCGGCGTGCTCTGCTCCGGCGGTGGCGTGCTCGCGCCGCGCGAGGACCTGTACGTGGACGGCCTGGCCGTCGGCGACTCCCACGCGTGCGGCCTCCTCCGGCCGAACCACACCGCCGCGTGCTGGAGCCTCGGGGGCGCCACCACCACGCTCTACTACCCGGCGGTCGGCACGGCGTTCGAGCTCCTCGTCGCCGGCGGTAACCTCACGTGCGGCCTCGTGTCGGCCAACTTCAGCCTGCTCTGCTGGTCGAGGGATGGGTTGGTGGCGGCGGAGGTGAACCTGCCGCCGATCCTCCCCGGCGTCTGCGTCTCCGACAACAGCTCGTGCAAATGCGGCCCGCTCCCGGACTCCGGGAGGTTCTGCAAGGTCTCCGGCGACGTCATCTGCAGAAGGTTCTGTGACACGTCGCCGCCGCCGCCGCCGTCTCCTCGTACGCCGTCGCCGCCGGCGACCCCGAGCTCGAGACGCGGCGTGTCCAAAGGCTGGATCGCGTTCGCCGTCGTCGGCGCGGTGGGCTGCTTCGCGGGGCTCTGCTCCATCGTCTACTGCCTCCTCTTCGGCTTCTGCAGCCACAAGAAGGTGCACAACTCTGTCCAGCCCAACATCGCCAGCAACAACAACGGCGGCGGCGGCGGCGGCGCCGCCGCAGCTGTCGGCAGTGGCGCGCCGAGCCCGTACGGGTCGCCGAACGGGTCGCTCGGCCGCCTGCGGCGGCAGCTGTCGCGCGTGATGACGCGGCAGCGGAGCGGGCCGTCGTCGTTCAAGGACCCCGCCGAGGAGTTCACCTTCGCGCAGCTCGCGGCGGCGACCAAGGACTTCGCGGCGGAGGCCAAGATCGGGGAGGGGAGCTTCGGGACGGTGTACCGCGGCAAGCTCCCCGACGGGCGGGAGGTGGCCATCAAGCGCGGCGAGTCGGGGCCGCGCGCGCGCAAGTTCCAGGAGAAGGAGACGGCGTTCCGGTCGGAGCTGGCCTTCCTCTCGCGGCTCCACCACAAGCACCTCGTCGGCTTCGTCGGCTACTGCGAGGAGAGCGACGAGCGGCTGCTGGTCTACGAGTACATGAAGAACGGCGCGCTCTACGACCACCTCCACCCCAAGCCCAACGGCTCGTCCTCGCCGTCCCCGTCGCCGGTGGCCACGTCGTGGAAGCTGCGCATCAAGATCCTGCTCGACGCGTCGCGCGGCATCGACTACCTCCACTCGTACGCCGTGCCGCCGATCATCCACCGCGACATCAAGTCGTCGAACATCCTGCTCGACGGCAGCTGGGTGGCGCGCGTGTCGGACTTCGGGCTGTCGCTGATGGGGCCGGAGACGGAGGAGGTGAAGCACCTGTCGATGAAGGCCGCCGGGACGGTGGGGTACATGGACCCGGAGTACTACGGCCTCCACCACCTCACCGTCAAGAGCGACGTCTACGGCTTCGGCGTCGTCATGCTCGAGGCGCTCACCGGGAAGCGCGCCATCTTCAAGGAGGCCGAGGGCGGGAGCCCCGTCAGCGTGGTGGACTACGCCGTCCCCAGCATCGTCGCCGGCGAGCTCAGCAAGGTGCTCGACGCCCGCGCGCCGGAGCCGAACGCGCACGAGGCCGAGGCCGTCGAGCTGGTCGCCTACACGGCGGTGCACTGCGTCCGGCTGGAGGGGAAGGACCGGCCGGCGATGGCGGACATCGTGGCCAACCTCGAGACGGCGGTGGCGCTCTGCGAGGACAGCGCCACCGGCGGCGGCGCCGCCGGCCATGGCAACAGCTCGTCCAGCGCCAGCCTCTCCATCACGTCCATGGAGTTGAGTAGGATGGATTGA More
Protein seq	MTPLLLLLLLPLLLAPASASTVAIAAGPTACAVAEGNSTVYCASATNSSSSAAVAPFVSFSQVSGGGGAFVCGLQVGGRALFCWPAAAPGQLRRVYNGPGQLSQLAVGGGHVAAYDTAARVIRWWRGGDRFPLWFGGGFASLVSGDDFTCAVETSTSAVRCWGPRGGAVEAGFLNASVSALAAGGSRACGVRRNDGGVLCSGGGVLAPREDLYVDGLAVGDSHACGLLRPNHTAACWSLGGATTTLYYPAVGTAFELLVAGGNLTCGLVSANFSLLCWSRDGLVAAEVNLPPILPGVCVSDNSSCKCGPLPDSGRFCKVSGDVICRRFCDTSPPPPPSPRTPSPPATPSSRRGVSKGWIAFAVVGAVGCFAGLCSIVYCLLFGFCSHKKVHNSVQPNIASNNNGGGGGGAAAAVGSGAPSPYGSPNGSLGRLRRQLSRVMTRQRSGPSSFKDPAEEFTFAQLAAATKDFAAEAKIGEGSFGTVYRGKLPDGREVAIKRGESGPRARKFQEKETAFRSELAFLSRLHHKHLVGFVGYCEESDERLLVYEYMKNGALYDHLHPKPNGSSSPSPSPVATSWKLRIKILLDASRGIDYLHSYAVPPIIHRDIKSSNILLDGSWVARVSDFGLSLMGPETEEVKHLSMKAAGTVGYMDPEYYGLHHLTVKSDVYGFGVVMLEALTGKRAIFKEAEGGSPVSVVDYAVPSIVAGELSKVLDARAPEPNAHEAEAVELVAYTAVHCVRLEGKDRPAMADIVANLETAVALCEDSATGGGAAGHGNSSSSASLSITSMELSRMD More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.0	0.934830	0.123769

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_05g0127300	RBH	0.306755	0.718168	0.341413
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os05g03620	RBH	0.221802	0.308105	0.056059
Nipponbare \| IRGSP 1.0 \| RAP-db	Os05g0127300	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_05g0002020	RBH	0.0	0.918490	0.664481
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_05g0002040	RBH	0.0	3.739183	0.111670
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_05g0002100	RBH	0.0	0.0	0.465795
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_05g0001970	RBH	0.0	0.103199	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_05g0002060	RBH	0.0	11.397996	1.585157
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_05G0024700	RBH	1.496299	69.89349	2.5693555
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_05g0002020	RBH	0.0	0.054956	0.043229
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_05G0025600	RBH	3.9072055	80.702934	2.4674545
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_05g0002010	RBH	0.0	0.158342	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_05g0001950	RBH	0.063978	2.119278	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_05g0002050	RBH	0.0	2.178081	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_05g0002060	RBH	0.0	0.334383	0.079678
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_05g0002070	RBH	0.041412	4.126173	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_03G021230	RBH	0.0	0.0	0.302867
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_05g0002080	RBH	0.0	6.498908	0.819937

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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