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
OsLiXu_02g0025320		OGI:05063070 \| 9/16			LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)			Chr02:26400484-26405282		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		gaagcctatattctactCccaggagtagctactcctattgtaaccatcggacacctgtccaactcacatcagggtttcgggcttcaacttactaacggattgtgagaaaagatccattaatccaccgatgcagaaacttgaatattcttttttttttgaaaattcggatcactgcgctgtgttctgcatggtgagtcattttgaatgttctgcatgcatggtttgttacccgcacgcatgcacgatcgagcgactaggagagtagttagtgtggaggttgctgtattgatactctatttaagttgacggtgatggaggacagaaaatgaggaccacaattatctttcggatttgtgaggaagaagattttgttctgcaggtttttgatggagcagaaaccctccggtggaaagggcagaatgtcgtcggcgaggtctgttgcgtcgccttccgcggcgcgagtaggcggaggctcgtcggcgcctgatgtcgagcagcagaagtcggtggcggccgtaggcgcgtcgtcgccggtgagtagtagcaagcaccatcatatggcgaaggcagaagatggaaccattacagttaatggtgacaagcagcagaatcctgccgcagataggtacacattgaagtttagttttagtttatgttctgttgaaattttttctcttgtttgtttgtttggctctaactggttattgtgttatttggtcatcaggaatggttttgtgcgttgcatggatactgctgcccggagtgaagtgatgaaccactctctccagaaatatgtcattcatttcgatggatgtcatcctcttcccatgagaaatcctaggaagagatgcgcttggtgctcactccgtgatattcgcgcggcttgcgacatgaatttcagaagcaacgaaacaacccggggcaacagtaatggttgcgaacatgtgtccaaggaaaatatgtagacaatagtgtgatgatcaggaaaattgtaataaGggcttgctttctgcacggtcgtagattagtcgtacgaactgtctctagttttgtatggtattttctatgaggAaaaaagcgagtagtatctaagtttagaaatctgtatcttctgctgtttgggaagtgaaataaaattgagatgttatcctttcaTttatctatttaagttgtgtgtactgcaaactccctgttgtcatcgtgaatgcaatccttcatcaagatgaagttcttcgagcagaatattgtacaagaatggagcagagatttcgaattggtttctgtgagtgtagcgttgcgtactcggaatgtttgttatagatgctatttttgtggcggtatggtttcatcagaattcgttaatgttgctagtggctgactttccggagtccaataacatgcttcgcacgtaggagccttgattttcggggaggttgttgaacagctaatggaaaataaaccggaattatttgtcagtatatatccaaccagctggaaaaaatgacgccctatagcAaattctgtttgccaaaaggggtagctaccagaatccgtgctggacagaaacaatattcgcgaagatagctatggaggaagaaggctggccggagaaaggtggcgaggatcatagtggacaacccatggacgtagttccgttggaaaggtaTtttttatgtcagtgtgattgtagtgtacaatttccctttctgcattgttagctgaattctcaTttttttgatcctaggatcgtggttgagggggaggaagatagtgatctgctgcctatttcactctctgacccagccattctgttgccgaaaattgggcagaccttcaatgaggactctgatggctatgcgttctacaatctgtacgctaggttcactggttttggtataaggagatccaagaacagatacaaagatggaggcgtgaagtccatgcaagagttctgctgcattcgcgaggtaaaaatctttagtgtattctttttttttttttgaaaaccatggtttcgtattctcgtaagattggcaaggttctatagtgtgatgcgtaggatcatcatttcataggTtttacgtagtaaggtgttcctgtaatttatgcagggtagagataattccgtcactggtccgccgaccaggataggctgcaaggctatggtcaggttaaatcgttcttctgaaagtcaaaagtggagagtttctgcattcgttagtgagcacaaccatgaaatgaaacgggacctgcagcatactaaacacttcctgtctcataatttcattgatgaagggacaaagaggaacataaaggaaatggtagataatgggatgacacctacagctatgtatggattactttcaggtatgcacggtgggccgtccttaaccccctttacaaggagggctgtgacaagaatggcgtatgccatcagaagggatgagtgtagcaatgatgtgcagaagacactgaatttttttagggaaatgcaatgccgtagtaagaatttcttttacaccatacagattgatggtgcttcaaggattaaaaatatattttggtgtcattctctttccagattaagttttgaccattttggggatgcaatcacttttgatactacatatcagactaataggtacaacatgccatttgggatttttgtcggtgtaaataaccattttcaaacaacaaTttttggttgcgctttgttgagggaggagacaatcgaagcattcaagtggcttttccaaacatttactgatgcaatgcatgggaagaggcctgcagcaattttaacaggtatatgTttatttggatggatcagtggtgtgtttaatgatatgtcttctgtttttaatctcgaatggttgtgaacttcttttttagataactgtcatcaaatggaggtggcgatcaaagcggtttggcctgaaacaattcatagagtttgcaaatggcatgttctaaagaatgctaaggagaacttggggaacatttacagtAaaagaagcagtttcaaacaggagttccaccgggtgttaaatgaaccccaaacagaggcagagtttgagaaggcatggtcaaatttaatggagcagtacaatctcgagtctagcgtgtatttgcgcaggatgtgggacatgaagaaaaaatgggctccagcttacttcagggaattcTtttttgctaggatgtcaaccacacaaagaagtgagagcatgaatcatgttctgaagaagtatgtaaaaccatcctcttcgctacatggatttgcaaagaggtatgagaatttctacaatgataggattgaagcggaagacgctgaggagcatgatacatacaatgtatgtttttttttaattatttccgtatgatatatcggtgtatggtactttctgctgaacatgttataatatgcttgtcatttctcgtgaactgtaggagaaggtttccacattaactagctcgcccattgagaaacatgcttctcgggtgtacactaggggtgcattttccaggttcaaggaacagttcaagctaagcttttcatttatggtttatcatacttcggatcagcatgttctgcagctagtccatataggtgatgacaccttgcaaagttggggcagcaaagaatttaaggttcaggttgacctgactgaacaagatctgtcatgtggatgcaagctttttgaacacttgggaattatatgctcccatattatcagagtaagtttgaatattaagcagttctcataacgctgttgtgtttttgtgtgttaatgcatagtgtttttgcaggttatggtacagtatggtttcacggaaataccgaagaagtatatcctgaagaggtggacaaaagatgctagagattcaatcccaaagcacttggaggagtcgtacttgaaggataaggaggcggcatcatcgagaacttatcggaacaccctcatgcacaagtctgcacttgatatggttagacttggtggtactagttcagaaacatatgagaagacagtggaagtgttgacaaagctgattggagaacttcaggtcatgtgtacttcgcaagttgtaaacaacaaggaaattcactgcggagatagaacaattgggaagAaacctactggtgtgcaattggatgatagtgtagacagttctgactcggagcatggaatgtctgatgaattttgtgtagccgatgaggacggcattggacaggatgtttctgctggtgaggattcagttgatgtggacatgactgatgtcaacgaagaagacatactccctcctgaggttagaagaagtcgtggacgaccgaggagtaccagactgatgtcgaagggagagacatctagcaaagcaaagaagaagaaggctagtgagagtacctccaaggacgagtcgaagaatcacgccaaaggaaaaaaagagtcaacgaagcagattaggtactgcaagcaatgtggtggtcatggccactataagagtacatgtggtcggaaatctagttatgagaggaagaagtgagtgtaattattctgttcaatgttctgcagggttgatgtcagcatttcgtttagcataaaatggaaattttattattattaaatttcgtcagcagaacatgtagttcattttgaatatttacatttggcaaacattgtaggaaatttgcgaacactagttttgtattttcctattttctgttgtgcctcagagtatgtggtgaagttgtagtctttggaagcatcctattggagcagaacatggctaattgtttctgctag More
CDS seq		atggagcagaaaccctccggtggaaagggcagaatgtcgtcggcgaggtctgttgcgtcgccttccgcggcgcgagtaggcggaggctcgtcggcgcctgatgtcgagcagcagaagtcggtggcggccgtaggcgcgtcgtcgccggtgagtagtagcaagcaccatcatatggcgaaggcagaagatggaaccattacagttaatggtgacaagcagcagaatcctgccgcagataggaatggttttgtgcgttgcatggatactgctgcccggagtgaagtgatgaaccactctctccagaaatatgtcattcatttcgatggatgtcatcctcttcccatgagaaatcctaggaagagatgcgcttggtgctcactccgtgatattcgcgcggcttgcgacatgaatttcagaagcaacgaaacaacccggggcaacagtaatggttgcgaacatgtgtccaaggaaaatatgggtagctaccagaatccgtgctggacagaaacaatattcgcgaagatagctatggaggaagaaggctggccggagaaaggtggcgaggatcatagtggacaacccatggacgtagttccgttggaaaggatcgtggttgagggggaggaagatagtgatctgctgcctatttcactctctgacccagccattctgttgccgaaaattgggcagaccttcaatgaggactctgatggctatgcgttctacaatctgtacgctaggttcactggttttggtataaggagatccaagaacagatacaaagatggaggcgtgaagtccatgcaagagttctgctgcattcgcgagggtagagataattccgtcactggtccgccgaccaggataggctgcaaggctatggtcaggttaaatcgttcttctgaaagtcaaaagtggagagtttctgcattcgttagtgagcacaaccatgaaatgaaacgggacctgcagcatactaaacacttcctgtctcataatttcattgatgaagggacaaagaggaacataaaggaaatggtagataatgggatgacacctacagctatgtatgcacggtgggccgtccttaaccccctttacaaggagggctgtgacaagaatggcgagaaggtttccacattaactagctcgcccattgagaaacatgcttctcgggtgtacactaggggtgcattttccaggttcaaggaacagttcaagctaagcttttcatttatggtttatcatacttcggatcagcatgttctgcagctagtccatataggtgatgacaccttgcaaagttggggcagcaaagaatttaaggttcaggttgacctgactgaacaagatctgtcatgtggatgcaagctttttgaacacttgggaattatatgctcccatattatcagagttatggtacagtatggtttcacggaaataccgaagaagtatatcctgaagaggtggacaaaagatgctagagattcaatcccaaagcacttggaggagtcgtacttgaaggataaggaggcggcatcatcgagaacttatcggaacaccctcatgcacaagtctgcacttgatatggttagacttggtggtactagttcagaaacatatgagaagacagtggaagtgttgacaaagctgattggagaacttcaggtcatgtgtacttcgcaagttgtaaacaacaaggaaattcactgcggagatagaacaattgggaagAaacctactggtgtgcaattggatgatagtgtagacagttctgactcggagcatggaatgtctgatgaattttgtgtagccgatgaggacggcattggacaggatgtttctgctggtgaggattcagttgatgtggacatgactgatgtcaacgaagaagacatactccctcctgaggttagaagaagtcgtggacgaccgaggagtaccagactgatgtcgaagggagagacatctagcaaagcaaagaagaagaaggctagtgagagtacctccaaggacgagtcgaagaatcacgccaaaggaaaaaaagagtcaacgaagcagattaggtactgcaagcaatgtggtggtcatggccactataagagtacatgtggtcggaaatctagttatgagaggaagaaagtatgtggtgaagttgtagtctttggaagcatcctattggagcagaacatggctaattgtttctgctag More
Protein seq		MEQKPSGGKGRMSSARSVASPSAARVGGGSSAPDVEQQKSVAAVGASSPVSSSKHHHMAKAEDGTITVNGDKQQNPAADRNGFVRCMDTAARSEVMNHSLQKYVIHFDGCHPLPMRNPRKRCAWCSLRDIRAACDMNFRSNETTRGNSNGCEHVSKENMGSYQNPCWTETIFAKIAMEEEGWPEKGGEDHSGQPMDVVPLERIVVEGEEDSDLLPISLSDPAILLPKIGQTFNEDSDGYAFYNLYARFTGFGIRRSKNRYKDGGVKSMQEFCCIREGRDNSVTGPPTRIGCKAMVRLNRSSESQKWRVSAFVSEHNHEMKRDLQHTKHFLSHNFIDEGTKRNIKEMVDNGMTPTAMYARWAVLNPLYKEGCDKNGEKVSTLTSSPIEKHASRVYTRGAFSRFKEQFKLSFSFMVYHTSDQHVLQLVHIGDDTLQSWGSKEFKVQVDLTEQDLSCGCKLFEHLGIICSHIIRVMVQYGFTEIPKKYILKRWTKDARDSIPKHLEESYLKDKEAASSRTYRNTLMHKSALDMVRLGGTSSETYEKTVEVLTKLIGELQVMCTSQVVNNKEIHCGDRTIGKKPTGVQLDDSVDSSDSEHGMSDEFCVADEDGIGQDVSAGEDSVDVDMTDVNEEDILPPEVRRSRGRPRSTRLMSKGETSSKAKKKKASESTSKDESKNHAKGKKESTKQIRYCKQCGGHGHYKSTCGRKSSYERKKVCGEVVVFGSILLEQNMANCFC
Function		Protein FAR1-RELATED SEQUENCE 5 [UniProtKB/Swiss-Prot:Q9SZL8]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLiXu_02g0025320	OsLiXu_02g0025320.01	Chr02	26400484	26405282	+	NAM
CDS seq	atggagcagaaaccctccggtggaaagggcagaatgtcgtcggcgaggtctgttgcgtcgccttccgcggcgcgagtaggcggaggctcgtcggcgcctgatgtcgagcagcagaagtcggtggcggccgtaggcgcgtcgtcgccggtgagtagtagcaagcaccatcatatggcgaaggcagaagatggaaccattacagttaatggtgacaagcagcagaatcctgccgcagataggaatggttttgtgcgttgcatggatactgctgcccggagtgaagtgatgaaccactctctccagaaatatgtcattcatttcgatggatgtcatcctcttcccatgagaaatcctaggaagagatgcgcttggtgctcactccgtgatattcgcgcggcttgcgacatgaatttcagaagcaacgaaacaacccggggcaacagtaatggttgcgaacatgtgtccaaggaaaatatgggtagctaccagaatccgtgctggacagaaacaatattcgcgaagatagctatggaggaagaaggctggccggagaaaggtggcgaggatcatagtggacaacccatggacgtagttccgttggaaaggatcgtggttgagggggaggaagatagtgatctgctgcctatttcactctctgacccagccattctgttgccgaaaattgggcagaccttcaatgaggactctgatggctatgcgttctacaatctgtacgctaggttcactggttttggtataaggagatccaagaacagatacaaagatggaggcgtgaagtccatgcaagagttctgctgcattcgcgagggtagagataattccgtcactggtccgccgaccaggataggctgcaaggctatggtcaggttaaatcgttcttctgaaagtcaaaagtggagagtttctgcattcgttagtgagcacaaccatgaaatgaaacgggacctgcagcatactaaacacttcctgtctcataatttcattgatgaagggacaaagaggaacataaaggaaatggtagataatgggatgacacctacagctatgtatgcacggtgggccgtccttaaccccctttacaaggagggctgtgacaagaatggcgagaaggtttccacattaactagctcgcccattgagaaacatgcttctcgggtgtacactaggggtgcattttccaggttcaaggaacagttcaagctaagcttttcatttatggtttatcatacttcggatcagcatgttctgcagctagtccatataggtgatgacaccttgcaaagttggggcagcaaagaatttaaggttcaggttgacctgactgaacaagatctgtcatgtggatgcaagctttttgaacacttgggaattatatgctcccatattatcagagttatggtacagtatggtttcacggaaataccgaagaagtatatcctgaagaggtggacaaaagatgctagagattcaatcccaaagcacttggaggagtcgtacttgaaggataaggaggcggcatcatcgagaacttatcggaacaccctcatgcacaagtctgcacttgatatggttagacttggtggtactagttcagaaacatatgagaagacagtggaagtgttgacaaagctgattggagaacttcaggtcatgtgtacttcgcaagttgtaaacaacaaggaaattcactgcggagatagaacaattgggaagAaacctactggtgtgcaattggatgatagtgtagacagttctgactcggagcatggaatgtctgatgaattttgtgtagccgatgaggacggcattggacaggatgtttctgctggtgaggattcagttgatgtggacatgactgatgtcaacgaagaagacatactccctcctgaggttagaagaagtcgtggacgaccgaggagtaccagactgatgtcgaagggagagacatctagcaaagcaaagaagaagaaggctagtgagagtacctccaaggacgagtcgaagaatcacgccaaaggaaaaaaagagtcaacgaagcagattaggtactgcaagcaatgtggtggtcatggccactataagagtacatgtggtcggaaatctagttatgagaggaagaaagtatgtggtgaagttgtagtctttggaagcatcctattggagcagaacatggctaattgtttctgctag More
Protein seq	MEQKPSGGKGRMSSARSVASPSAARVGGGSSAPDVEQQKSVAAVGASSPVSSSKHHHMAKAEDGTITVNGDKQQNPAADRNGFVRCMDTAARSEVMNHSLQKYVIHFDGCHPLPMRNPRKRCAWCSLRDIRAACDMNFRSNETTRGNSNGCEHVSKENMGSYQNPCWTETIFAKIAMEEEGWPEKGGEDHSGQPMDVVPLERIVVEGEEDSDLLPISLSDPAILLPKIGQTFNEDSDGYAFYNLYARFTGFGIRRSKNRYKDGGVKSMQEFCCIREGRDNSVTGPPTRIGCKAMVRLNRSSESQKWRVSAFVSEHNHEMKRDLQHTKHFLSHNFIDEGTKRNIKEMVDNGMTPTAMYARWAVLNPLYKEGCDKNGEKVSTLTSSPIEKHASRVYTRGAFSRFKEQFKLSFSFMVYHTSDQHVLQLVHIGDDTLQSWGSKEFKVQVDLTEQDLSCGCKLFEHLGIICSHIIRVMVQYGFTEIPKKYILKRWTKDARDSIPKHLEESYLKDKEAASSRTYRNTLMHKSALDMVRLGGTSSETYEKTVEVLTKLIGELQVMCTSQVVNNKEIHCGDRTIGKKPTGVQLDDSVDSSDSEHGMSDEFCVADEDGIGQDVSAGEDSVDVDMTDVNEEDILPPEVRRSRGRPRSTRLMSKGETSSKAKKKKASESTSKDESKNHAKGKKESTKQIRYCKQCGGHGHYKSTCGRKSSYERKKVCGEVVVFGSILLEQNMANCFC More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.0	0.0	0.091510

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_02g0517750	SBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os02g31850	SBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| RAP-db	Os02g0517750	SBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_02g0018970	SBH	0.000000	0.0	0.0
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_02g0019090	SBH	0.0	0.0	0.0
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_02g0019050	SBH	0.0	0.0	0.0
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_02g0018800	SBH	0.0	0.0	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_02g0018780	SBH	0.0	0.0	0.527337
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_02G0312100	SBH	0.605582	0.223633	0.0171635
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_02g0025070	RBH	0.0	0.0	0.096441
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_02G0418100	SBH	7.160331	10.378751	14.12516
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_02g0019020	SBH	0.0	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_02g0018740	SBH	0.0	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_02g0025420	RBH	0.0	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_04g0020690	RBH	0.0	0.0	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_02g0018670	SBH	0.0	0.0	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_02G025490	RBH	0.0	0.0	0.0
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_02g0018790	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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