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
OsIR64_07g0006540		OGI:07014740 \| 16/16			IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)			Chr07:5528070-5532893		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		SNRK1B, SnRK1B, OsSnRK1B, OsSnRK1.3, SnRK1.3, OsSnRK1A2
DNA seq		AGCTTAAGCTACCCATAGTTTCACATACTAATTACTACTACTACTTGACACACACACACGCTCAGTGAGGCGATCGAGGATGCAGGGCGGCGGCGGCGGCGGCGGCGGCGGCGACGCAGCAGCACCGGGAGCTGCTCGAGCGGTACGAGCTGGTGCGGGTGCGGGGGCGCGGTAGCTTCGCGCAGGTGTGGGAGGCTCGCCACCGCCGCACCGGCCTCAGCGTCGCCGTCAAGATCCTCAACCTCGCCGGACTTCTCGCCAGCGGCATCCCCATCCGCAAAGGCAAGCAGCCACCGCCTTCGTCTTCTTCTTCTTCTTCCTCTCCGATCGTCGAGCTCGAGCGATCCGTCTCTCATCTTGAATTCTTGATTTTCTTTCTCTCCTGAATTTTCGATCGGCGGCGGCGGCGGCAGTGGAGAGGGAGATCGCGGTGATGAGGCTGCTGAACCACCCGCACATCGTGCGGTTCCACGAGGCGATCGCCGGCGGCGACGGCGGCGGCCACGTGTACATCGTGATGGAGCTCGCGACGCAGGGGCAGCTCTACGATTACGTCACCCAGCTCGGCCGCCTCCGCGAGGATGACGCTCGCAGGATCTTCCAGCAGGTTGAAAACCCTGCTTTCTTCAGCTCTTCACAAGTTCAGAGTTAACAAAAAAGAAGAAGAACTCTGCATTTTTGCACCGATTTATTGCTCCCCATTTTGAACTGAAATTTCGACAATGATTTGTGTTAGTCTACGAGATTTTTTTATGGTTTGATGAACGCCGATTTCCATGTTCCAAACTTTGAAAAATTTTACTCTGAGAAAGAGGAGAAAGAAAGTCAGACGACATAAACATTTTAATGAAATGTTGTTAATTTGATGATGCAACAACGAATGCATTTTTTTTAATTGGTCAATTCGATGGAGGCAGATTATATCAGGCGCCGAATACTGCCACCACAACATGGTCGTCCACCGTGACCTGAAACTGGAGAACATCCTGATGGATTCAGAGATGAACGTCAAGATCGTCGACTTCGGTTTCAGCAAGTTCTTCAGGCACAACAAGGTGCTCAGCGCGTCATGCGGAAGCCGAGAATATGCCGCTCCCGAGGTCAGCCACAAATTCACAAATATTCTTTTTCTCATATGAAATATTCCTAACCATTCCAAAATACATAGACGGAAATGCTTATATTTTGGAACGGACCGGAGAGAATACATAGTTCAATGTCAATACGCCTAGTAATTAGAAGAAATTTAAGTGTTAAAAAAAAGGAGTTACATGTCGTCGTCGATCATATAGTAACTTGGGGAATGTATTGAAATTCATATGTGAGATGTTTATGTTGCTTATTGTAATTTGTATTGTAGCTACTCGCGGGTAGAAAATATGTTGGTCCACCTGTGGATGTTTGGAGCTGTGGAGTAATCCTTTACATCCTCTTCTGTGGACGCTTGCCCTTTGACAGCGCCGATGTATCAGAGCTGCACAGGATCATCAAGGTAGGAAATTACTCTTCGAATTCTAATCACAATAGTTACAATATCTAATTAACCGTGTTAATATTAACAAAAAGAATGACTTTGATATAAACATAAACAACGTATATGAAGTTATCTGAATTAGAAGTTCCTGAGTTCAAATCTTGTAGTATATAGCCTAGTAGTTACAGTGACCTGAGTAGTACCCCAAGGTCCTGAGTTCAAATCTTCTATGGAGCGAATTTCAGATTGGGTTGTTTTCGGGGCTAAGTTCCCTATTTCAATGGCCGTATATATCCGGTTGGATATAGAGGCCGGGTAAAAAAATACCCTTATCTAAAAAAAAATCTGAATTAGAAGTTCAACATCATGGATACTAAAATGTCAATTGTAAAACAGCTGACAATAAATTATTCGACCGAATGACTGTAGACCGGCCAACAAATACGGTATAATAAGAAGTTATAAACTGTGAATTGTAAAACATCTGAAAAAAATATATTATTCAGCTGAATTACTCTAGACCAGCAAATAAAAGAAGGTATAAAATTCCAACTGTAAAACATATGACAAAAAAATATATTATTCAGCTGCTGAACAACTGTAGACAAGCAAATGGAAGAAGAAGTTATCAGTGGTCAAAACTGAAAATCCCAATGAGATTGAGAAACAGCTGATCTGTTTTTTTCTTCTTCCTCTCTTCGTATTGCGTTGCAGAGAGGAGAGTTCAGTATCCCACCGTACGTGCCTGACGACGCGAGGGATCTCATCTCCAGCATGCTGATCGTGAGACCTGACAAGCGCCTCACCATCACCGAGGTCAGGACGCACCGTTGGCTGCAGCACTCCATCCCTCGCTACCTCGCAATGCCTCCTCTCAACGCTCGCACACAGATCACCAGGGCAAGTGTTGCTTAATTAATTACTTTTGATTAATTATGTGTTATTTGGGTGCTTAATTTTAATTGATTACGCATTTTTTTGATTAATTGTGTTTATATCTTGTGCTAGATTGATGCTGAGACTGTCGACAAGGTAGTCGGCCATGGCTTTGAAAGGAGGTACTTGGTTGAATCACTTGAGAACAGAGTCGAAAACGAGGTATGTAATGTACTACCTCATTTTTAAAATATATGACGCCATTAACTTTTCGCATAACGTTTAACCATTCGTTTTATTCACAAATTTAGTATGCATATATAAAATTATATGTTATGATTGTATTTTATTTGATAATAAAACAAATCATAACAAAAATAAATGAATAAGATGAATGGTCAAACTTTGTGAAAAGTCAACGTCATCATACATTTTGAAAGTAACAACTATAAGAGTATTGGTACATAGAAAGGTTAATGACATGCCACTCATGACATGTTGGCAACATATACATACAGATGGATCGATGCAATTGCAATTCACTTGTGGTTCAAAATATGCATGTATGGATTTGTTTGTAGGCGACGGTCGCCTACAACCTGATCCTCAATAAGAAGTTCGATGCCCCAACACGTTATGTTTGGACAATTGACGTCTATCAAGAAGCTGGACAAAGTAACACCACGGTACGTATAGAAACTAACTAGTTCTGCAGAAAATAAATCTTCATTCATGGCAATACTAAAATTCCCATGTCCAAGGACAAATATCTTGGATATGTGCAATTGGACATGCACTTCAAAGTTCAAACATATGACTCTGGTGGATTGTTTTCTTTTGAGTATGACAGTAAAAGTTTTCCATAAAATTCTTATTTGAGCACATAAAAGTATATTCACGATGTTCAATTTTACCAATCTAGAATTAATGTTGAATAATTTCTAATTCAGTACTCCATCCATCTAGACTGATAATACCTATCGTTTTAAAAAGTATACGGTCTTCAAAAAAAACAACATTGACCACTATTTTCTATTAAAATATGTATAGATAAATATATGATTTTGTTGGAGCACTTTTAAGACCAATCTATATATATGGTCACCACATTTCTAAGACAAACATTTTAGATGTTATTTATAATTAAAAGTTTTTAAAGTTTGACAATACTCTTATCCAAAACAATAAGTATAATCAACCTGGAGTAATGTTTATAGACAAAAATGTTTTATTTGCACAATAATGATCAAGAAATTTCTTTGTACTAAACAAAGTGGATTTTCCTTTTTTTTAAAAAATCTAACACTGTATTGGATCAACTGATTCAACACCATCATACACCTATTTGCTCTGGACAGGGAGCAGCAGAAGCAACTGGCAGCAGTGCTGCCGGAGAGCCGCCGGTCGCCGTCGCCGGAGAAGACGACGGACGCAACAACGGATGGGCGCTGGGAGGGGTGGAGTTCCACGAGTGCCCCCGCGAGGCGATGCGCGCCATCGCGGCGGCGCTGCGCGAGACCGGCGTCGTCTACGCGCACGACGACGACGACCGCGGCCGCTACGGCAAGCTGCTCTGCGCACGCTTCGCCGGCGCCGCCGGCGTCCGCCGCATCATCCGCAGCTACCTCGCCGCCACCGACGACGCGCCCTCCTCTTCCTCCTCCGCCGGTGGTGGCAGTGGCAGAGGTGAGGCTGGCCATGGCGGTGGAGCTCCCGTCGATGATGCTGTCCTCGAGAGCTTGTCTGCGGCTGTGTTCTTTGAAATTCAGGTATTCTCCTCAAGCGCATCATTCATACACTCTCGTAACCTCATCTTTTCGCTTATATTTATATTTATCAGTTAAAGTTTAAATATTTAACTTTAAATTTAGAGGTGATTTTAAAGTTTTTCATCGTAGTTTATTTTTTAGTCTTTTCATTTATATCGTTAAGAACATGTATATAAGAACTTTATTAAAAAAATATTTTTCATTTTTAAATATATCATTTGGCTTGTTCCTCGAATAAGCCAAACAATGAGACTGATAGTGTTTCTCCCCTTGACAATTATTACTCCCTCCAAATCTTAATACTTGCAAAAAAAAAACATGTGTTTAACCGTTCCTTTAATTTTTTTTTACCCATGATAAAAATTTTACCTCTTGTGCTTATTGTAGCTGTACAAGTCAGAAGGGGAAGGGAATTACCTGATGGATCTGAAGAGGCTTTCTGGCCCACAGCTTCAATACCTCAACATATGCTCAGAGTTAAGCTCCAAGTTGAGAGCAATTAACTGAGGCGGTAGAAATTAACAGTCTCCTCCAAGGAAGAAATAATCTGAGGAAATATTAGGTTATCCCTCTTTTCCTTTTGTTTTTAGTGAAAGGAAAAGCTAGCATGTATGAGAGGGAAAAATTAAAGAAAAATACATATAACACTATGAGATGAACTTATACAAATATATACTAATTAAATCCGTCAGGATTTATCAATTT More
CDS seq		ATGAGGCTGCTGAACCACCCGCACATCGTGCGGTTCCACGAGGCGATCGCCGGCGGCGACGGCGGCGGCCACGTGTACATCGTGATGGAGCTCGCGACGCAGGGGCAGCTCTACGATTACGTCACCCAGCTCGGCCGCCTCCGCGAGGATGACGCTCGCAGGATCTTCCAGCAGATTATATCAGGCGCCGAATACTGCCACCACAACATGGTCGTCCACCGTGACCTGAAACTGGAGAACATCCTGATGGATTCAGAGATGAACGTCAAGATCGTCGACTTCGGTTTCAGCAAGTTCTTCAGGCACAACAAGGTGCTCAGCGCGTCATGCGGAAGCCGAGAATATGCCGCTCCCGAGCTACTCGCGGGTAGAAAATATGTTGGTCCACCTGTGGATGTTTGGAGCTGTGGAGTAATCCTTTACATCCTCTTCTGTGGACGCTTGCCCTTTGACAGCGCCGATGTATCAGAGCTGCACAGGATCATCAAGAGAGGAGAGTTCAGTATCCCACCGTACGTGCCTGACGACGCGAGGGATCTCATCTCCAGCATGCTGATCGTGAGACCTGACAAGCGCCTCACCATCACCGAGGTCAGGACGCACCGTTGGCTGCAGCACTCCATCCCTCGCTACCTCGCAATGCCTCCTCTCAACGCTCGCACACAGATCACCAGGGCAAGTATTGATGCTGAGACTGTCGACAAGGCGACGGTCGCCTACAACCTGATCCTCAATAAGAAGTTCGATGCCCCAACACGTTATGTTTGGACAATTGACGTCTATCAAGAAGCTGGACAAAGTAACACCACGGGAGCAGCAGAAGCAACTGGCAGCAGTGCTGCCGGAGAGCCGCCGGTCGCCGTCGCCGGAGAAGACGACGGACGCAACAACGGATGGGCGCTGGGAGGGGTGGAGTTCCACGAGTGCCCCCGCGAGGCGATGCGCGCCATCGCGGCGGCGCTGCGCGAGACCGGCGTCGTCTACGCGCACGACGACGACGACCGCGGCCGCTACGGCAAGCTGCTCTGCGCACGCTTCGCCGGCGCCGCCGGCGTCCGCCGCATCATCCGCAGCTACCTCGCCGCCACCGACGACGCGCCCTCCTCTTCCTCCTCCGCCGGTGGTGGCAGTGGCAGAGGTGAGGCTGGCCATGGCGGTGGAGCTCCCGTCGATGATGCTCTGTACAAGTCAGAAGGGGAAGGGAATTACCTGATGGATCTGAAGAGGCTTTCTGGCCCACAGCTTCAATACCTCAACATATGCTCAGAGTTAAGCTCCAAGTTGAGAGCAATTAACTGA More
Protein seq		MRLLNHPHIVRFHEAIAGGDGGGHVYIVMELATQGQLYDYVTQLGRLREDDARRIFQQIISGAEYCHHNMVVHRDLKLENILMDSEMNVKIVDFGFSKFFRHNKVLSASCGSREYAAPELLAGRKYVGPPVDVWSCGVILYILFCGRLPFDSADVSELHRIIKRGEFSIPPYVPDDARDLISSMLIVRPDKRLTITEVRTHRWLQHSIPRYLAMPPLNARTQITRASIDAETVDKATVAYNLILNKKFDAPTRYVWTIDVYQEAGQSNTTGAAEATGSSAAGEPPVAVAGEDDGRNNGWALGGVEFHECPREAMRAIAAALRETGVVYAHDDDDRGRYGKLLCARFAGAAGVRRIIRSYLAATDDAPSSSSSAGGGSGRGEAGHGGGAPVDDALYKSEGEGNYLMDLKRLSGPQLQYLNICSELSSKLRAIN
Function		SNF1-related protein kinase catalytic subunit alpha KIN11 [UniProtKB/Swiss-Prot:P92958]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsIR64_07g0006540	OsIR64_07g0006540.01	Chr07	5528125	5532695	+	NAM
CDS seq	ATGAGGCTGCTGAACCACCCGCACATCGTGCGGTTCCACGAGGCGATCGCCGGCGGCGACGGCGGCGGCCACGTGTACATCGTGATGGAGCTCGCGACGCAGGGGCAGCTCTACGATTACGTCACCCAGCTCGGCCGCCTCCGCGAGGATGACGCTCGCAGGATCTTCCAGCAGATTATATCAGGCGCCGAATACTGCCACCACAACATGGTCGTCCACCGTGACCTGAAACTGGAGAACATCCTGATGGATTCAGAGATGAACGTCAAGATCGTCGACTTCGGTTTCAGCAAGTTCTTCAGGCACAACAAGGTGCTCAGCGCGTCATGCGGAAGCCGAGAATATGCCGCTCCCGAGCTACTCGCGGGTAGAAAATATGTTGGTCCACCTGTGGATGTTTGGAGCTGTGGAGTAATCCTTTACATCCTCTTCTGTGGACGCTTGCCCTTTGACAGCGCCGATGTATCAGAGCTGCACAGGATCATCAAGAGAGGAGAGTTCAGTATCCCACCGTACGTGCCTGACGACGCGAGGGATCTCATCTCCAGCATGCTGATCGTGAGACCTGACAAGCGCCTCACCATCACCGAGGTCAGGACGCACCGTTGGCTGCAGCACTCCATCCCTCGCTACCTCGCAATGCCTCCTCTCAACGCTCGCACACAGATCACCAGGGCAAGTATTGATGCTGAGACTGTCGACAAGGCGACGGTCGCCTACAACCTGATCCTCAATAAGAAGTTCGATGCCCCAACACGTTATGTTTGGACAATTGACGTCTATCAAGAAGCTGGACAAAGTAACACCACGGGAGCAGCAGAAGCAACTGGCAGCAGTGCTGCCGGAGAGCCGCCGGTCGCCGTCGCCGGAGAAGACGACGGACGCAACAACGGATGGGCGCTGGGAGGGGTGGAGTTCCACGAGTGCCCCCGCGAGGCGATGCGCGCCATCGCGGCGGCGCTGCGCGAGACCGGCGTCGTCTACGCGCACGACGACGACGACCGCGGCCGCTACGGCAAGCTGCTCTGCGCACGCTTCGCCGGCGCCGCCGGCGTCCGCCGCATCATCCGCAGCTACCTCGCCGCCACCGACGACGCGCCCTCCTCTTCCTCCTCCGCCGGTGGTGGCAGTGGCAGAGGTGAGGCTGGCCATGGCGGTGGAGCTCCCGTCGATGATGCTCTGTACAAGTCAGAAGGGGAAGGGAATTACCTGATGGATCTGAAGAGGCTTTCTGGCCCACAGCTTCAATACCTCAACATATGCTCAGAGTTAAGCTCCAAGTTGAGAGCAATTAACTGA More
Protein seq	MRLLNHPHIVRFHEAIAGGDGGGHVYIVMELATQGQLYDYVTQLGRLREDDARRIFQQIISGAEYCHHNMVVHRDLKLENILMDSEMNVKIVDFGFSKFFRHNKVLSASCGSREYAAPELLAGRKYVGPPVDVWSCGVILYILFCGRLPFDSADVSELHRIIKRGEFSIPPYVPDDARDLISSMLIVRPDKRLTITEVRTHRWLQHSIPRYLAMPPLNARTQITRASIDAETVDKATVAYNLILNKKFDAPTRYVWTIDVYQEAGQSNTTGAAEATGSSAAGEPPVAVAGEDDGRNNGWALGGVEFHECPREAMRAIAAALRETGVVYAHDDDDRGRYGKLLCARFAGAAGVRRIIRSYLAATDDAPSSSSSAGGGSGRGEAGHGGGAPVDDALYKSEGEGNYLMDLKRLSGPQLQYLNICSELSSKLRAIN More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsIR64_07g0006540	OsIR64_07g0006540.02	Chr07	5528070	5532893	+	IsoSeq
CDS seq	ATGCCCCAACACGTTATGTTTGGACAATTGACGTCTATCAAGAAGCTGGACAAAGTAACACCACGGGAGCAGCAGAAGCAACTGGCAGCAGTGCTGCCGGAGAGCCGCCGGTCGCCGTCGCCGGAGAAGACGACGGACGCAACAACGGATGGGCGCTGGGAGGGGTGGAGTTCCACGAGTGCCCCCGCGAGGCGATGCGCGCCATCGCGGCGGCGCTGCGCGAGACCGGCGTCGTCTACGCGCACGACGACGACGACCGCGGCCGCTACGGCAAGCTGCTCTGCGCACGCTTCGCCGGCGCCGCCGGCGTCCGCCGCATCATCCGCAGCTACCTCGCCGCCACCGACGACGCGCCCTCCTCTTCCTCCTCCGCCGGTGGTGGCAGTGGCAGAGGTGAGGCTGGCCATGGCGGTGGAGCTCCCGTCGATGATGCTGTCCTCGAGAGCTTGTCTGCGGCTGTGTTCTTTGAAATTCAGCTGTACAAGTCAGAAGGGGAAGGGAATT More
Protein seq	MPQHVMFGQLTSIKKLDKVTPREQQKQLAAVLPESRRSPSPEKTTDATTDGRWEGWSSTSAPARRCAPSRRRCARPASSTRTTTTTAAATASCSAHASPAPPASAASSAATSPPPTTRPPLPPPPVVAVAEVRLAMAVELPSMMLSSRACLRLCSLKFSCTSQKGKGI

Event Type	Chromosome	Start	End	Strand	Alternative mRNAs	Total mRNAs	Source
A5	Chr07	5530575	5531001	+	OsIR64_07g0006540.02	OsIR64_07g0006540.01,OsIR64_07g0006540.02	All
A5	Chr07	5532146	5532576	+	OsIR64_07g0006540.02	OsIR64_07g0006540.01,OsIR64_07g0006540.02	All
A5	Chr07	5530443	5530552	+	OsIR64_07g0006540.01	OsIR64_07g0006540.01,OsIR64_07g0006540.02	All

Expression

	Leaf	Root	Panicle
FPKM	0.0	0.0	0.625214

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_07g0194100	RBH	0.258217	0.000000	1.532851
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os07g09610	RBH	0.176769	0.000000	0.399444
Nipponbare \| IRGSP 1.0 \| RAP-db	Os07g0194100	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_07g0006080	RBH	0.0	0.0	0.666161
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_07g0006040	RBH	0.0	0.000000	0.538213
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_07g0005950	RBH	0.0	1.762884	2.164663
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_07g0005870	RBH	0.0	0.000000	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_07g0006050	RBH	0.553294	0.000000	7.071759
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_07G0085600	RBH	0.1526085	1.541802	0.54747
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_03g0029870	RBH	0.036071	0.073408	0.245648
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_07G0087500	RBH	0.2481405	1.5696585	0.738874
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_07g0005970	RBH	0.0	0.000000	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_07g0005970	RBH	0.0	3.939554	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_07g0006020	RBH	0.0	0.000000	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_07g0006150	RBH	0.0	0.130483	0.737665
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_07g0005980	RBH	0.0	0.410325	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_07G006170	RBH	0.0	0.450115	0.626734
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_07g0005960	RBH	0.0	0.0	1.621504

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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