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
OsKeNa_02g0019100		OGI:02054590 \| 16/16			KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)			Chr02:18966347-18969944		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		aatttgtaaaaagaatagctgggtacatatagccttgaatacagttataccagacataaattattctgaactaagaaattttcgaaagaaaaatgctgcaactattctggcttgcttgcataacatgctcatatcttcttagataactttaggccgtgagtgacgaagtccggcagaatagcctcgtttttcttgaatgacagcaagttggacagaaattcctttcgaagatttccttgatcctgttgttatgataaacaattatttattgaaaaggaagatatgttgaccctagtaggggcagaaaactcacagttaatgaggggttgacaagacgagttccatcccagtttctcatgtagtatagcacatgaaaggcacaatccagcctagcataatgtaagtatagtaatgcccaaatttgagtagaatgaaaatattaatttagatcaaatcgggattatcaactcgaacctgttatttaaagctggtatggtcgaagggaactcagaaacccagtttggtatatcctcgtcccaatccggaaatgcaagattcatgcactccttcagagcatttgaaatgtgaatctttgttttggagtgtctttctgcagtatcctccgatcttttcgaggcgtctctcagtgggtcgaggatgcataattgtttttctccatatcaaatgcgtaaagagaatagtgcagaggttgaaggagtggaataaatatctacagaataatgttgagaatgcaaaagttagtggcctgcacatttgcacttgacgtaattaatttttcaagacgctgaaaaatgacataccaggtggcaacttggtaggtcatatggtatcagggagtcatctttgaatgatggtagatgatcctctgggttccataggtcatcactagcagttgcaaacatctacagggccatattaaaatatttagacctttaaaatatgaattaaaatagttgagtgtaactacaagcacttactgcaaaatcctggtttaagaaatgtctccagcctacgaaatatgtccctccaaatctatgtatctcatatgatgccaaaacttgaactgcaacattgaatgtttcttcttgcatttgagtgtctagccgaatagcctgctgtatgtcatgtaggcttaatgacatagggacaagttgagagatgtgaacccaaattttcctggtaaatgtgatatatgtattataaatgatggttgtaccaaagaatgaaacatttcggataggtggcttacttaacagcttcttcatcagtgattgaagttacataggtgtataaatcatcaagtgccttcaagtcatgtctgacgaaagagtgttgcttgctcagaaatggtgatttcaccgaacggcttggtttaatagacctctttggccgatcgaataggatatcagaaggacctccgataattctcctcttggatttaggtgggaactttgtacatgcgtactcctcacgcatgtaaatcctcgcaccactcgtctctttcagcaaagagtgcggagagaaactactaagttttgtttggcggtaacctgttatgattcagaacagtcaaactaagtagtatcatgtggttggttatgaatgaaaataaaaattagaaacaggccggtggggataattaccgctctgagaaaagggagttttctgcaccgcattatcctctccagcttcatcagaggcttgtactaacttcgagattgcctgatctagggtatgtgctttgagttcttgtgctttctcagagtcttcaaccaccttggagatgtcatgacctggggtacatgccaccatgtttgcatcttcgatatcttgtgtaatacctagatcaaagcttgggggctcgatgtccgtttaggtgtcgaagcttcgattcacatgggcagcctatgcacatgtatattaacaattattatcgcaaatggatttttttaatatggaatagattaacaaacttcatgagattgcacctctgttgcacccgtaggatggccaagattgcatttttcaacatgtcggttacgcagctaaaacaaaaaaaaatccaaaagtctgaactttctgcattcgggaattgtcaatatgaatatactacttgtaggagacttgattttaccttcatctttccatacgcagggaaaggtttccggttcttgagaattacatccctgtcaatgaattctactctcatggagtcattgtacacgccaatccttgaaatgttttcatgcccaggagtgtccgtcctaaaatccagatggtgcagataaaaaagctgagcagtataaattatagcatgtgaaaagttgatgcgagtatagcagaaagtaaaaggcaaagaattccaacgaatactaggataatctcacctcaggtagtataatgcagccattgatgtaaccaatgctttttcgatggcgtattttgtcttgcagtgctgctgctgcatctttaatctcatgcaaaacaaattctgcccagttgtacttgtgaatattttctacatcaaccaaagccttcatataccttatagatatgtgattgttaacagattgaggagccaagaatttggttacaacgaagattataaaagcagtcttgaatacaatctgttcgtgaacagtcattgtcctggtaaattttttctccaaaatcctctgaatcgttgcaattgttattccgtcaaatgaatctttctcaaagatttcacacatataagccttaacatcttttacctcgtttttaattgcaggtaaaatctgcttccgtccacaagggattcccaaaagtaagctgacatcctcacaggtcaaacaaatttcatgtttagatccagcaaacagattacctgatgatgggtctagcttgcacagaatccatgctccaaattgcttgttcagtttagtcagtctcatggaaagcaacccgtcaaaccccatttgcctcactagctctttctgctggtcaccaatatctgagaACagatctgagagaatagcaggagtgcacctggtgtaaattttttcttgtactacctttttacccttgatgccacttgtttttttggaatttgagactgcaataccagctagctgcttccgctgatacatctttcttgctcgagcagcatggagagctctagtgagaacagaactagagccactaccacctgaaacattcgcacctgctgcaggactgcaaaggtgctgcaaatgcaaaccattaacaaaatgaattagtaacagatgggatcaagaaaagactcaatagtaggaaaaaaatccatccatggccgccacgagcttcgacggcgctgtcgtcggggcgctcggcacgcacactgtgtcgcgcaagattggggcgctcagcgtgttgttcatcgtcgccatggcctccactgtactcaccggaaaaaaacagatgaatatgccaacaaaccttgaaacgggagttctccatgctagagctttcagcacagccgccggtgaggctaccaatctgagtttagttgtgttaagaactaacaaaacgcagagaacgatattagattgataatgtt More
CDS seq		atggagaactcccgtttcaaggccatggcgacgatgaacaacacgctgagcgccccaatcttgcgcgacacagtgtgcgtgccgagcgccccgacgacagcgccgtcgaagctccacctttgcagtcctgcagcaggtgcgaatgtttcaggtggtagtggctctagttctgttctcactagagctctccatgctgctcgagcaagaaagatgtatcagcggaagcagctagctggtattgcagtctcaaattccaaaaaaacaagtggcatcaagggtaaaaaggtagtacaagaaaaaatttacaccaggtgcactcctgctattctctcagatctGTtctcagatattggtgaccagcagaaagagctagtgaggcaaatggggtttgacgggttgctttccatgagactgactaaactgaacaagcaatttggagcatggattctgtgcaagctagacccatcatcaggtaatctgtttgctggatctaaacatgaaatttgtttgacctgtgaggatgtcagcttacttttgggaatcccttgtggacggaagcagattttacctgcaattaaaaacgaggtaaaagatgttaaggcttatatgtgtgaaatctttgagaaagattcatttgacggaataacaattgcaacgattcagaggattttggagaaaaaatttaccaggacaatgactgttcacgaacagattgtattcaagactgcttttataatcttcgttgtaaccaaattcttggctcctcaatctgttaacaatcacatatctataaggtatatgaaggctttggttgatgtagaaaatattcacaagtacaactgggcagaatttgttttgcatgagattaaagatgcagcagcagcactgcaagacaaaatacgccatcgaaaaagcattggttacatcaatggctgcattatactacctgagcttttttatctgcaccatctggattttaggacggacactcctgggcatgaaaacatttcaaggattggcgtgtacaatgactccatgagagtagaattcattgacagggatgtaattctcaagaaccggaaacctttccctgcgtatggaaagatgaagctgcgtaaccgacatgttgaaaaatgcaatcttggccatcctacgggtgcaacagaggctgcccatgtgaatcgaagcttcgacacctaa More
Protein seq		MENSRFKAMATMNNTLSAPILRDTVCVPSAPTTAPSKLHLCSPAAGANVSGGSGSSSVLTRALHAARARKMYQRKQLAGIAVSNSKKTSGIKGKKVVQEKIYTRCTPAILSDLFSDIGDQQKELVRQMGFDGLLSMRLTKLNKQFGAWILCKLDPSSGNLFAGSKHEICLTCEDVSLLLGIPCGRKQILPAIKNEVKDVKAYMCEIFEKDSFDGITIATIQRILEKKFTRTMTVHEQIVFKTAFIIFVVTKFLAPQSVNNHISIRYMKALVDVENIHKYNWAEFVLHEIKDAAAALQDKIRHRKSIGYINGCIILPELFYLHHLDFRTDTPGHENISRIGVYNDSMRVEFIDRDVILKNRKPFPAYGKMKLRNRHVEKCNLGHPTGATEAAHVNRSFDT
Function		-

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsKeNa_02g0019100	OsKeNa_02g0019100.01	Chr02	18966347	18969944	-	NAM
CDS seq	atggagaactcccgtttcaaggccatggcgacgatgaacaacacgctgagcgccccaatcttgcgcgacacagtgtgcgtgccgagcgccccgacgacagcgccgtcgaagctccacctttgcagtcctgcagcaggtgcgaatgtttcaggtggtagtggctctagttctgttctcactagagctctccatgctgctcgagcaagaaagatgtatcagcggaagcagctagctggtattgcagtctcaaattccaaaaaaacaagtggcatcaagggtaaaaaggtagtacaagaaaaaatttacaccaggtgcactcctgctattctctcagatctGTtctcagatattggtgaccagcagaaagagctagtgaggcaaatggggtttgacgggttgctttccatgagactgactaaactgaacaagcaatttggagcatggattctgtgcaagctagacccatcatcaggtaatctgtttgctggatctaaacatgaaatttgtttgacctgtgaggatgtcagcttacttttgggaatcccttgtggacggaagcagattttacctgcaattaaaaacgaggtaaaagatgttaaggcttatatgtgtgaaatctttgagaaagattcatttgacggaataacaattgcaacgattcagaggattttggagaaaaaatttaccaggacaatgactgttcacgaacagattgtattcaagactgcttttataatcttcgttgtaaccaaattcttggctcctcaatctgttaacaatcacatatctataaggtatatgaaggctttggttgatgtagaaaatattcacaagtacaactgggcagaatttgttttgcatgagattaaagatgcagcagcagcactgcaagacaaaatacgccatcgaaaaagcattggttacatcaatggctgcattatactacctgagcttttttatctgcaccatctggattttaggacggacactcctgggcatgaaaacatttcaaggattggcgtgtacaatgactccatgagagtagaattcattgacagggatgtaattctcaagaaccggaaacctttccctgcgtatggaaagatgaagctgcgtaaccgacatgttgaaaaatgcaatcttggccatcctacgggtgcaacagaggctgcccatgtgaatcgaagcttcgacacctaa More
Protein seq	MENSRFKAMATMNNTLSAPILRDTVCVPSAPTTAPSKLHLCSPAAGANVSGGSGSSSVLTRALHAARARKMYQRKQLAGIAVSNSKKTSGIKGKKVVQEKIYTRCTPAILSDLFSDIGDQQKELVRQMGFDGLLSMRLTKLNKQFGAWILCKLDPSSGNLFAGSKHEICLTCEDVSLLLGIPCGRKQILPAIKNEVKDVKAYMCEIFEKDSFDGITIATIQRILEKKFTRTMTVHEQIVFKTAFIIFVVTKFLAPQSVNNHISIRYMKALVDVENIHKYNWAEFVLHEIKDAAAALQDKIRHRKSIGYINGCIILPELFYLHHLDFRTDTPGHENISRIGVYNDSMRVEFIDRDVILKNRKPFPAYGKMKLRNRHVEKCNLGHPTGATEAAHVNRSFDT More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsKeNa_02g0019100	OsKeNa_02g0019100.02	Chr02	18966347	18969944	-	NAM
CDS seq	atggagaactcccgtttcaaggccatggcgacgatgaacaacacgctgagcgccccaatcttgcgcgacacagtgtgcgtgccgagcgccccgacgacagcgccgtcgaagctccacctttgcagtcctgcagcaggtgcgaatgtttcaggtggtagtggctctagttctgttctcactagagctctccatgctgctcgagcaagaaagatgtatcagcggaagcagctagctgatctGTtctcagatattggtgaccagcagaaagagctagtgaggcaaatggggtttgacgggttgctttccatgagactgactaaactgaacaagcaatttggagcatggattctgtgcaagctagacccatcatcaggtaatctgtttgctggatctaaacatgaaatttgtttgacctgtgaggatgtcagcttacttttgggaatcccttgtggacggaagcagattttacctgcaattaaaaacgaggtaaaagatgttaaggcttatatgtgtgaaatctttgagaaagattcatttgacggaataacaattgcaacgattcagaggattttggagaaaaaatttaccaggacaatgactgttcacgaacagattgtattcaagactgcttttataatcttcgttgtaaccaaattcttggctcctcaatctgttaacaatcacatatctataaggtatatgaaggctttggttgatgtagaaaatattcacaagtacaactgggcagaatttgttttgcatgagattaaagatgcagcagcagcactgcaagacaaaatacgccatcgaaaaagcattggttacatcaatggctgcattatactacctgagcttttttatctgcaccatctggattttaggacggacactcctgggcatgaaaacatttcaaggattggcgtgtacaatgactccatgagagtagaattcattgacagggatgtaattctcaagaaccggaaacctttccctgcgtatggaaagatgaagctgcgtaaccgacatgttgaaaaatgcaatcttggccatcctacgggtgcaacagaggctgcccatgtgaatcgaagcttcgacacctaa More
Protein seq	MENSRFKAMATMNNTLSAPILRDTVCVPSAPTTAPSKLHLCSPAAGANVSGGSGSSSVLTRALHAARARKMYQRKQLADLFSDIGDQQKELVRQMGFDGLLSMRLTKLNKQFGAWILCKLDPSSGNLFAGSKHEICLTCEDVSLLLGIPCGRKQILPAIKNEVKDVKAYMCEIFEKDSFDGITIATIQRILEKKFTRTMTVHEQIVFKTAFIIFVVTKFLAPQSVNNHISIRYMKALVDVENIHKYNWAEFVLHEIKDAAAALQDKIRHRKSIGYINGCIILPELFYLHHLDFRTDTPGHENISRIGVYNDSMRVEFIDRDVILKNRKPFPAYGKMKLRNRHVEKCNLGHPTGATEAAHVNRSFDT More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsKeNa_02g0019100	OsKeNa_02g0019100.04	Chr02	18966347	18969800	-	NAM
CDS seq	atggtggcatgtaccccaggtcatgacatctccaaggtggttgaagactctgagaaagcacaagaactcaaagcacataccctagatcaggcaatctcgaagttagtacaagcctctgatgaagctggagaggataatgcggtgcagaaaactcccttttctcagagcggttaccgccaaacaaaacttagtagtttctctccgcactctttgctgaaagagacgagtggtgcgaggatttacatgcgtgaggagtacgcatgtacaaagttcccacctaaatccaagaggagaattatcggaggtccttctgatatcctattcgatcggccaaagaggtctattaaaccaagccgttcggtgaaatcaccatttctgagcaagcaacactctttcgtcagacatgacttgaaggcacttgatgatttatacacctatgtaacttcaatcactgatgaagaagctgttaagaaaatttgggttcacatctctcaacttgtccctatgtcattaagcctacatgacatacagcaggctattcggctagacactcaaatgcaagaagaaacattcaatgttgcagttcaagttttggcatcatatgagatacatagatttggagggacatatttcgtaggctggagacatttcttaaaccaggattttgcaatgtttgcaactgctagtgatgacctatggaacccagaggatcatctaccatcattcaaagatgactccctgataccatatgacctaccaagttgccacctggatcaaggaaatcttcgaaaggaatttctgtccaacttgctgtcattcaagaaaaacgaggctattctgccggacttcgtcactcacggcctaaagttatctaagaagatatga More
Protein seq	MVACTPGHDISKVVEDSEKAQELKAHTLDQAISKLVQASDEAGEDNAVQKTPFSQSGYRQTKLSSFSPHSLLKETSGARIYMREEYACTKFPPKSKRRIIGGPSDILFDRPKRSIKPSRSVKSPFLSKQHSFVRHDLKALDDLYTYVTSITDEEAVKKIWVHISQLVPMSLSLHDIQQAIRLDTQMQEETFNVAVQVLASYEIHRFGGTYFVGWRHFLNQDFAMFATASDDLWNPEDHLPSFKDDSLIPYDLPSCHLDQGNLRKEFLSNLLSFKKNEAILPDFVTHGLKLSKKI More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsKeNa_02g0019100	OsKeNa_02g0019100.03	Chr02	18966347	18969800	-	NAM
CDS seq	atggtggcatgtaccccaggtcatgacatctccaaggtggttgaagactctgagaaagcacaagaactcaaagcacataccctagatcaggcaatctcgaagttagtacaagcctctgatgaagctggagaggataatgcggtgcagaaaactcccttttctcagagcggttaccgccaaacaaaacttagtagtttctctccgcactctttgctgaaagagacgagtggtgcgaggatttacatgcgtgaggagtacgcatgtacaaagttcccacctaaatccaagaggagaattatcggaggtccttctgatatcctattcgatcggccaaagaggtctattaaaccaagccgttcggtgaaatcaccatttctgagcaagcaacactctttcgtcagacatgacttgaaggcacttgatgatttatacacctatgtaacttcaatcactgatgaagaagctgttaagaaaatttgggttcacatctctcaacttgtccctatgtcattaagcctacatgacatacagcaggctattcggctagacactcaaatgcaagaagaaacattcaatgttgcagttcaagttttggcatcatatgagatacatagatttggagggacatatttcgtaggctggagacatttcttaaaccaggattttgcaatgtttgcaactgctagtgatgacctatggaacccagaggatcatctaccatcattcaaagatgactccctgataccatatgacctaccaaaaaaacaattatgcatcctcgacccactgagagacgcctcgaaaagatcggaggatactgcagaaagacactccaaaacaaagattcacatttcaaatgctctgaaggagtgcatgaatcttgcatttccggattgggacgaggatataccaaactgggatcaaggaaatcttcgaaaggaatttctgtccaacttgctgtcattcaagaaaaacgaggctattctgccggacttcgtcactcacggcctaaagttatctaagaagatatga More
Protein seq	MVACTPGHDISKVVEDSEKAQELKAHTLDQAISKLVQASDEAGEDNAVQKTPFSQSGYRQTKLSSFSPHSLLKETSGARIYMREEYACTKFPPKSKRRIIGGPSDILFDRPKRSIKPSRSVKSPFLSKQHSFVRHDLKALDDLYTYVTSITDEEAVKKIWVHISQLVPMSLSLHDIQQAIRLDTQMQEETFNVAVQVLASYEIHRFGGTYFVGWRHFLNQDFAMFATASDDLWNPEDHLPSFKDDSLIPYDLPKKQLCILDPLRDASKRSEDTAERHSKTKIHISNALKECMNLAFPDWDEDIPNWDQGNLRKEFLSNLLSFKKNEAILPDFVTHGLKLSKKI More

Event Type	Chromosome	Start	End	Strand	Alternative mRNAs	Total mRNAs	Source
RI	Chr02	18968755	18969591	-	OsKeNa_02g0019100.01	OsKeNa_02g0019100.01,OsKeNa_02g0019100.02	All
SE	Chr02	18966588	18967168	-	OsKeNa_02g0019100.01,OsKeNa_02g0019100.02	OsKeNa_02g0019100.01,OsKeNa_02g0019100.04,OsKeNa_02g0019100.02	All
A5	Chr02	18966588	18966862	-	OsKeNa_02g0019100.01,OsKeNa_02g0019100.02	OsKeNa_02g0019100.01,OsKeNa_02g0019100.02,OsKeNa_02g0019100.03	All

Expression

	Leaf	Root	Panicle
FPKM	0.194164	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_02g0517900	RBH	1.345377	0.845570	0.0
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os02g31860	RBH	0.764204	0.279114	0.0
Nipponbare \| IRGSP 1.0 \| RAP-db	Os02g0517900	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_02g0018980	RBH	0.361815	0.0	0.0
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_05g0020440	SBH	0.0	0.0	0.0
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_02g0019060	RBH	0.679885	0.0	0.000000
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_02g0018810	RBH	0.056133	0.0	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_02g0018790	RBH	0.398189	0.0	0.000000
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_02G0312300	RBH	0.7616705	0.4634385	0.0556815
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_02g0018500	RBH	0.000000	0.0	0.000000
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_02G0331200	RBH	0.2204525	0.062258	0.2171405
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_02g0019030	RBH	0.031512	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_02g0018750	RBH	0.412376	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_02g0019170	RBH	0.691711	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_02g0018900	RBH	0.264230	0.0	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_02g0018680	RBH	0.0	0.0	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_02G019100	RBH	0.493623	0.0	0.568950
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_02g0018800	RBH	2.168619	0.0	0.0

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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