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
OsLima_12g0001070		OGI:12002710 \| 13/16			LIMA \| Os127564RS1 \| Gramene(+IsoSeq)			Chr12:730236-736220		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		WRKY95, OsWRKY95
DNA seq		gaccgcggaaacatcttcaatttttataatggtaataatagcttatacacatgcttcttaatttcaggtttacttcttagtcatgagcaaaatgctatgtatttttaccaggtcacaacttatcattacagcacatcctggaagaaactccaagctagcttatagctaacatcaagtcatcatccccatatgcatattggactgtgctcacatcttattgaatcatcgaacgtccaatgctcagaacccaatggtgagttcacaataaactcgaaggctctctccaattcaaaatctatcaaatactctggcatattttgtaccatacacaagttttcaaatctttcatcttgaacttcatgggcttcgtgttcaagtgtagggctattgcattcgttttgattgataggttccatactgtgatgggctgtgtcgacaacatatggattggctatgccatctcccctgcatgtgtgttggccatagtagtcaacgttgaacaactttgatgttccatttccactggaatccatttgttgcactgtctttgttgcaggacaaccttgcactttcctattggcacacctgtagtagctcctgcttaagaaaatgagctcattagatgtatatatttttttctgttagataaaatcaatatgcttcgaggaatggaaataaacaggagttcatatgctcatttatacctggaatgttttgctctagagatccatttctgaccatacttcctccattgatgtccatcattgtgaggtgcttgagccacagttgaacctgtgtgttctgcattctttctatcataatcaagaggatcaatcaaatttcgttagcaatgaatgataagctagtgggcattcctctagtggcatgtaATatatacatataccttctcttgctaacactttctttggcttcctcctccaagttgtggttgtccatgctatgcttgtcaccttttctcttacctccaacaagattggtcagcttgttagtgtctccaccaagttctagcatggagatagccttatctgagcaacttaatatatctcccaagagttaaagagcaagcttggcttgttcattgtcgctcggaagtattggcatgaccatgccacgcagctccaccatgagagccttttggtgctctatcatgttgatcactacttgacagtcactatgaccaaaagattcgagaattttcatcttatgagtttgtctattatggagatgtggctatgatagtcagggcagaaggtgttagctaactgcagctttaggtatatatttataccggtagcaagcagcagcaccatgatgggaggaattgagattgttcaaatgttctcacaacaaaagtctagcgaagtgaggtcattatcaaataccagtacaaTtttatgactgagagccagatgtaactctaaaaaattgcaaaaatgggttctattctaggatgtctctcctgagttacatatatcttacgtcagagcctgcatcagtgttttcttttattagtgaaagtacctaaaaggttaagtttttgctcagaacttcatcctaaaagaagtttggagaaaattactccaggaacatcgtaatcgagtagaggaacaaacaaatttcccttttccggaacaaagaaaatttgtattgtatattaggtgactataatcccattgagattgcatgtctattatattttCttctatggagtatttagcatattatcactgtgaagaggtgtatataaacaattgtaaacataaatcccagcggacccagcccaagaaaaaaagcgatttatcaagaacttgagcatatcattaaaaaaaatatctgtgtatgaaattacaacatccaaccataactgataggtgaaaaacgtttctgtttgtacttgatgatcaggaggatatggatggggtgacttgtggctaggaatgattcctgtgattgttggctgacagacctagttaccataatataaatgtgcgagcagctgcttcattccacatcatatgtggatgcaaaaaattgctctggTTttctggtggttgtagagagaagatatatggggaccacaaattgtccctcgttactggtccctgaatagggacatgcttgctttgactccaatggaacgcaatcaattgttccaaccggctggccagcaggttcaattttagtttaactcaagcatgtttgttctttccaattaaaacacctatctggtaatctggatcgagtggattattactagcttggtgaatctgttggaataatcttgtggagcaaagtaacgtgtatcttagccttgattaattgtgccaatattaactttaatcaagctatagagcaatggcagatcttctcgtaatatctgtccaagccaaccatctaagaaggggaaaaaatataaaaggggaaattcaatccagctatggctttatcttttgctattctgcttgtatgaacttgtaataaattatagtaacaatatcttttccttatttgaatttagtgaccgggatgttttactccatcaaaaacacggcgtgaccgtgcgagtcaagaaggaacacgccaataccttatgttcagtttgacagcacgctcagatggatgtactccagtaccgtgccattttttgtttcctgttgtgttctgagcagccggtcggcgacaaacatacacagtcaaggtgttctgccgcttcgttctgtccgcctaaggttcggcatgttctgtttcctctttggcttctgaaattctgaattctagcttgataattcaactgaaaagtcgatatcgatgttacagtcttggtgtttatagaagaaaattgctcaccatgttgtagttgtgaaatatgtgtgaaatcgatctcctatcatcaatgatagaatcaaattttctcaaagagttataaacattatgtagttatgttcaggggttcagagcggcagaggatctgtcaacaaaattgaacaaggttaaggttaaggttaaggttgcaactaaaccagtccaaGgggcatatctatagtttcgggctagatgtttcctgcgtagCccagcttgagaagagcccctatctctcaaaaaaaaggtggcccaaggaatccagacactaatacagtactatcacaaagacatggtgacgctgccttgcataagccacatgcccaaaatcctcaatccaatttgacagttttataaatttctttccatatatgatggtatgaTcgatgtccagccgggtccattgaatcactatcagaacctgaatattacctatatattaattgttaggTttagttgatgggatcgattatttcttcattcttgaattgaatggtccagtggatgacccatatactgagctaggtacaaatcattgcggtattgatgatctcactatgttttacatataatgttttgcatataatAacgcccatcaaattgacaggtaaaaacaaaatggagctgaTtttgaaaagagaactactgccgggcgaggatggtctggatggatggatcaacTttgaaaagaaataagatgtgtgttaaacatctcattcttttcctgatgcgctgaaacgaggtaaagcttggatgctcttttgttaatttcttataactttaggagaggagatattttcaagactcaagagcacctgtaactatgaagatgctttaattttaggtagaaaaaacatcgacttctatcttacgaattctgcttGgggtatattttatgcactgaacaaagaaaaagtttgtttttaccgtgaacttcaaaaactgtacgagtaatgccttaaaacccttttccatgattgtttcaactggcatagagatggttttcactgatatttctagcaggtcccacaaagataatttccatctccctcctagctagtggcttaactggtatctagtctcataagcatgtgcagtagtacacttacaatgtgcttagtgaagcttctctttgtgagtcgggtaattttaccatccttgataaggtaccaggaggtaccatattttctagtataaaatttggtacctccaggtaccaaaagttttagtgtaaaatttagacacctccatgtatttttcttcaaggacaatgcaatttctcttgtgagtcagtgtgaattcttgaaaaactgattcaacaaagagtgctaaggtacaaatccgtgatcgtcacaaaattcatactgaagctagatggtctagcaatgTtttttttttttgagatatagtctagcaatgttgatatgatattcatatggctcgatcaaattaaaaaactgaacgaatattataaatgatagactacaacacgctcaaccttcagcagcagaataatggaggcatatatcgtcatcagtacatatattcattaatacgagaacccattcttcctgtcgacacatcattcacacttctACacacacacaaaatatcattgaaactcattgctcttatagctcaattctatgcttgatcaagtagtctaagacattttactggcacttggaaaaataaggataggtgtaaatattacttaccgatggtcagtacagataatttatttctccctcctccgctgcgtacccaagcataaggccccaccactgatgtcgatgatttaattacaacgctgcagccgtgcagtgcctgctgatgcaaaataaaataggatcagaatgaagcatcctaatatgggccgatgttggccaaaactacatcttgtgtgagttaaccTtttttgtttaaacagttccctaaatcaacatgtgctactgaactttctactgttgcaggcgcagggaaaaataatttcagtcgagatgtcttcagtaacagcgatataaataacttctagaaaaaaaattaaataataggaatcaggaaggctataccaactaaagctggtacccgaataattatcctttttaatagtagtgcacacaatttagcaagatagaagtgtatacattattgcagCccttatgtaaactgctgaaatcctttccatgagcaaataTttttctaattcagtcataaatgaagatagtaatccactctccatgaatagattattagtgtaattaagcattggtgacttgagctgtacagtatatgcatctgagacagattgctcctaggaccattcctgtaaattaatactaactataatcgatttacatgagtctctaatttgtctggtccctctgaagctAaagctgggatttttCttttggtgTAtttgtttgtgattcatgaaacatttagatacacttcatcatctgttgtgcgataccttagagaatcatttactttgagtataagtaaacagatctacattctacaaaatatttttatttgctgatacttgcagttctactcagttgtcccaaacttgattttctcaattgtaattatagccaatcatggagcctaaattgatacgatttttgggcttatgaaataaagcctaataaagataattaatattggaattcataaggtgcatacgtataatacaaatcaatatagtagtatttgaaaggctaacatccaatcaacagtcaagaaaggaagatagagaaggaaacagagaatgaggaatagagaagagagtgaccttggttgttctgccctggataccgatttggtgaataggtgtggacgcagctcctgcggataccctcctcctcgccatcgctattcatctgtcatCcctttccccccttcttcagggtagcgggagattagaggtggatgtgatgcgccggtgccggtggggtatacggcggcggcaggggtgggatggagccgcggtgatgaggggatgagtaacgccggcaatggagacggagaggactagagggggaggtagcggcggcttgggagaagaggcggcgcgcggcggctgggcctcaggagcggagg More
CDS seq		atggcgaggaggagggtatccgcaggagctgcgtccacacctattcaccaaatcggtatccagggcagaacaaccaaggcactgcacggctgcagcgttgtaattaaatcatcgacatcagtggtggggccttatgcttgggtacgcagcggaggagggagaaataaattatctgtactgaccatcggtaagagaaaaggtgacaagcatagcatggacaaccacaacttggaggaggaagccaaagaaagtgttagcaagagaagaaagaatgcagaacacacaggttcaactgtggctcaagcacctcacaatgatggacatcaatggaggaagtatggtcagaaatggatctctagagcaaaacattccaggagctactacaggtgtgccaataggaaagtgcaaggttgtcctgcaacaaagacagtgcaacaaatggattccagtggaaatggaacatcaaagttgttcaacgttgactactatggccaacacacatgcaggggagatggcatagccaatccatatgttgtcgacacagcccatcacagtatggaacctatcaatcaaaacgaatgcaatagccctacacttgaacacgaagcccatgaagttcaagatgaaagatttgaaaacttgtgtatggtacaaaatatgccagagtatttgatagattttgaattggagagagccttcgagtttattgtgaactcaccattgggttctgagcattggacgttcgatgattcaataagatgtgagcacagtccaatatgcatatggggatga More
Protein seq		MARRRVSAGAASTPIHQIGIQGRTTKALHGCSVVIKSSTSVVGPYAWVRSGGGRNKLSVLTIGKRKGDKHSMDNHNLEEEAKESVSKRRKNAEHTGSTVAQAPHNDGHQWRKYGQKWISRAKHSRSYYRCANRKVQGCPATKTVQQMDSSGNGTSKLFNVDYYGQHTCRGDGIANPYVVDTAHHSMEPINQNECNSPTLEHEAHEVQDERFENLCMVQNMPEYLIDFELERAFEFIVNSPLGSEHWTFDDSIRCEHSPICIWG
Function		Probable WRKY transcription factor 46 [UniProtKB/Swiss-Prot:Q9SKD9]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLima_12g0001070	OsLima_12g0001070.03	Chr12	730236	733641	-	NAM
CDS seq	atgctagaacttggtggagacactaacaagctgaccaatcttgttggaggtaagagaaaaggtgacaagcatagcatggacaaccacaacttggaggaggaagccaaagaaagtgttagcaagagaagaaagaatgcagaacacacaggttcaactgtggctcaagcacctcacaatgatggacatcaatggaggaagtatggtcagaaatggatctctagagcaaaacattccaggagctactacaggtgtgccaataggaaagtgcaaggttgtcctgcaacaaagacagtgcaacaaatggattccagtggaaatggaacatcaaagttgttcaacgttgactactatggccaacacacatgcaggggagatggcatagccaatccatatgttgtcgacacagcccatcacagtatggaacctatcaatcaaaacgaatgcaatagccctacacttgaacacgaagcccatgaagttcaagatgaaagatttgaaaacttgtgtatggtacaaaatatgccagagtatttgatagattttgaattggagagagccttcgagtttattgtgaactcaccattgggttctgagcattggacgttcgatgattcaataagatgtgagcacagtccaatatgcatatggggatga More
Protein seq	MLELGGDTNKLTNLVGGKRKGDKHSMDNHNLEEEAKESVSKRRKNAEHTGSTVAQAPHNDGHQWRKYGQKWISRAKHSRSYYRCANRKVQGCPATKTVQQMDSSGNGTSKLFNVDYYGQHTCRGDGIANPYVVDTAHHSMEPINQNECNSPTLEHEAHEVQDERFENLCMVQNMPEYLIDFELERAFEFIVNSPLGSEHWTFDDSIRCEHSPICIWG More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLima_12g0001070	OsLima_12g0001070.02	Chr12	733307	736220	-	NAM
CDS seq	atggcgaggaggagggtatccgcaggagctgcgtccacacctattcaccaaatcggtatccagggcagaacaaccaaggcactgcacggctgcagcgttgtaattaaatcatcgacatcagtggtggggccttatgcttgggtacgcagcggaggagggagaaataaattatctgtactgaccatcggggctcttctcaagctggGctacgcaggaaacatctag More
Protein seq	MARRRVSAGAASTPIHQIGIQGRTTKALHGCSVVIKSSTSVVGPYAWVRSGGGRNKLSVLTIGALLKLGYAGNI

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLima_12g0001070	OsLima_12g0001070.01	Chr12	730236	736220	-	NAM
CDS seq	atggcgaggaggagggtatccgcaggagctgcgtccacacctattcaccaaatcggtatccagggcagaacaaccaaggcactgcacggctgcagcgttgtaattaaatcatcgacatcagtggtggggccttatgcttgggtacgcagcggaggagggagaaataaattatctgtactgaccatcggtaagagaaaaggtgacaagcatagcatggacaaccacaacttggaggaggaagccaaagaaagtgttagcaagagaagaaagaatgcagaacacacaggttcaactgtggctcaagcacctcacaatgatggacatcaatggaggaagtatggtcagaaatggatctctagagcaaaacattccaggagctactacaggtgtgccaataggaaagtgcaaggttgtcctgcaacaaagacagtgcaacaaatggattccagtggaaatggaacatcaaagttgttcaacgttgactactatggccaacacacatgcaggggagatggcatagccaatccatatgttgtcgacacagcccatcacagtatggaacctatcaatcaaaacgaatgcaatagccctacacttgaacacgaagcccatgaagttcaagatgaaagatttgaaaacttgtgtatggtacaaaatatgccagagtatttgatagattttgaattggagagagccttcgagtttattgtgaactcaccattgggttctgagcattggacgttcgatgattcaataagatgtgagcacagtccaatatgcatatggggatga More
Protein seq	MARRRVSAGAASTPIHQIGIQGRTTKALHGCSVVIKSSTSVVGPYAWVRSGGGRNKLSVLTIGKRKGDKHSMDNHNLEEEAKESVSKRRKNAEHTGSTVAQAPHNDGHQWRKYGQKWISRAKHSRSYYRCANRKVQGCPATKTVQQMDSSGNGTSKLFNVDYYGQHTCRGDGIANPYVVDTAHHSMEPINQNECNSPTLEHEAHEVQDERFENLCMVQNMPEYLIDFELERAFEFIVNSPLGSEHWTFDDSIRCEHSPICIWG More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.503554	0.0	None

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_12g0116600	RBH	0.000000	0.000000	0.469041
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os12g02440	RBH	0.269752	0.424551	0.120703
Nipponbare \| IRGSP 1.0 \| RAP-db	Os12g0116600	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_12g0001050	RBH	0.429162	1.226227	1.501690
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_12g0001260	RBH	0.0	0.0	1.409631
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_12g0001270	RBH	0.895411	0.0	2.659462
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_12g0001090	RBH	0.022216	0.087658	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_12g0001340	RBH	6.883327	2.149907	7.431344
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_11G0015600	SBH	0.81806	0.460498	0.4151525
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_12g0001320	RBH	0.191580	0.156515	0.629280
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_12G0015700	RBH	13.923152	19.8306655	12.104101
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_11g0001100	RBH	0.0	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_12g0001380	RBH	0.884228	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_12g0001350	RBH	4.559852	0.000000	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_12g0001190	RBH	1.082904	0.0	0.341438
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_11g0001250	SBH	0.0	0.0	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_11G001180	SBH	0.000000	0.0	0.000000
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_11g0001190	SBH	0.0	0.0	0.0

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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