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
OsPr106_03g0040740		OGI:03098280 \| 16/16			PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)			Chr03:37586526-37591881		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		acaaaaacgtgcaaaaactattccagttggtattaggcgaaatgcaaggtttctgcctttctggtatttggagcaagactttttttgctccgagaatactgctcaaaactagtcgatagttggacctaaactatgctaacctttggtatgtcaaatgcacgtacgttagtctacaggctttgaaaaaaatggcctacctaaaacacaattacacaaactaaagcctgtggtagtgacagtctcctcaaggtaactgtctcttcacgaactcccgatatatcatatcgatgaattcatcattctgccagaagcaaatttcacccgtgagtaaaatttcttagttaagaatggagtgtgagcaaaattttggatacataagcgtttttgaggaaatgcattggaaaaacaaaccatgttagagaagtctaacgcaaaactatgcaagcaaaaaactatggttgacacttgacaccataaaatcatttagaggataaagcacaccagaatcatgtggacccagtaaaggttgagcgaaaatcggcgccaatttacacggctaaataaacaaaaggattcaagaacatacctgacaaagactcagtagcacatccttcagttggtctcttgtgatcactgggcggccataagacactcccgaggtaagaaatggggaagggttgggcggtggaaatggctgcagtaatggcatgccatatggtggtggaatggacgatgcagtcggtagggagaagggctggtgcaagggagcactttgaagctgctgaacggtaatgggaggatgaagaggagcagcagaacacaatgacgaagcagcatgagaagctgtctgcaaagatggcatcggaggaaagaacaacggatttgctagacttgtaggctggatggtagaagtgctactagatctatgagcatcatggggcatcacaggaactgatgaaatttgagaaggatgcagaccatgcaaagcaggagattgtggtggaatagcaagatgcgatgcatgagtaagtgaatgaatcatcccaacagatttatttgactgtactgcaggagattgtggtgggatatcaaaaggtgatgcatgagtagatgaatgaatcatcccaacagatttgtttgaccttactgcaggagattgtggtggaatagcaagaggtgcctgagtagatgaatgaaccatcccgaaagatttatttgactgtattgcaggagattgtggtggaatagcatgaggtgacgcatgagtagatgaatgaaccatcccaacagatttgtttgactgtactgcacttgcttcgtccatggtagcaccaacacatgcagcaccctgatcaaagagttttcaatattcacacataaaatctattttctcaggaaaattgcaaaatgatcctagattgctaagcatcagataaatacgaacaaggtcaataagagatgtcaattttcctcacctttagcaaagccgacaagaaatcatacttcgcattatccagcaccatgatagatgacgttggctgttttagagtatcctcattcgaaggaacagcaggcactacttccggcttttcatactcactgaaaggagcaaaacaaaagagaatttcactataattgacagcctcagttcctcattgattttgggtaacattgttctgaatcgaagggatcaattcgacccaactagataccacagtgaatctgcatttccttcttgttccctacaatttactgaactaactcatttttcctttgaatcatccagtagcagttcacatggagcatcacctgctcaaaattttattcctgcaatttttaagcttgtgatctaaaaaggccctcatattgcaaactaggaaaaaactcttttcaactaggatattggtaaataacactcttcaatgatttttttttcttttaggaatgaattttgttcaggttagaattacattagatgagaaaacaactataataggtccgtacaacattgatctgtgagcaatgaccatatacgaaatagatatttaatcttaataaggaagtgatttctaaataacaaataatataatgtctgaagcaaataacaataattcattatcacctcatgtctaagcaattggtacaagttacatccacttgcaaaggtgaacaggaaagaaaatgcatgacagtttcaaatacctttcagttacagaaaccttggcctttGgggacaccctggaaaatgccttctgtatcctgtaccattgcaaatgaggtgtatagttcagcaggcatggggggagaacacacagaagagttacaaaaaaatgatgccttgcccttcataatgttttgtattgccaagccagtggacgcaagcaacaaactaccagtcagtcagtagagtaagattttatatagaaatattatgaatattgactaaacaactgtgtgacttactacagccacaattttaaataacaaaacagcttgttcaaacttcaaagccaaaaacaaagacagctgaaagtatgagccggtagtggtttatcttgctacacattttgttatattagaaatcatgttttacatatttggcaccaaggcaccaaatttagttgtgatgtgacaagtgagacaactccttctaagagaaattctttcggagcagacctccagtattactgagatgcatgcttacagagaattggagagttaaaacttgaaaaactgaataacattatatacggaaactgcacaagatagcatgtactaaaggcctaaagtggtgcagtagtagggtggatagaacagcaggccattgcatgatcagagaaaacaacacagttcttatggatgccagatacacgggaagtatcatgcagcccagcaggcttacaacttgatggtttggcagcattgctttcctgaaagataccatgactcacagagcactgaaaacctcaacacgtctcctaaaaaccacattgctacactaggctttagtgggctttacagtgaatgataatagagaagggccatatcagtgtgcacataattgtaatttagcgggtcatatcagtgtattgataattgcaATatattagttcagtaactccagttttcgacaggcagataccttatcaaacatggaatgccaaatagaccaataTaaaatcagttctcttgtttatgttgaaaaaacgcctaccctgagaagcaagacatctgaaacaagcctactaatgatctccacagatcaaaacaatgctattgatgaaatttagtgacatatgaaagagaaaatgattacctactgaaaagatatccaacttgttcacattcctgaggatcatagaaccaaattcctgtgatttcgtctgcagcattgtggtacatgatgtaagggacttgtacttgatattcaaaaccccccaagagatcttcggtcagattttctgttcataggaggaaatggggaggacagcataatctacataatcaatctccatactagcatacaaagtaagcagaaatcggaaaccacaaaatcacttaactaggatatggaagttagtgttttgagaccaaaagcatgattccgtaagatgaaagtgagtgagctagctttgtactgatgttacggccttacaggatgcaccaatttttaacaatttattcaagtccatacaagtgttttctatcatggatatgtgcttcaaaacaatacatagtttagtcgtccaagggactacaagcaaaaacatttgattacacactgatatggcataacagaaatgaacaggaagcattagtttcatcattttacattgtaattagagtagacagtgattcaaagaacagatagcttcgattttaggatgccttaggttcgggacttaaggttatatcagatgatactgccggagcatgccgatgtagatatattacctgtatttttacgattcatgacaataaactggaatctgggttgggtgttcctgaaagaagaaaattttggtgttaaaaaacaatgagcaattttagacaaccagcagatgcaaacacgtcagggttcacagacccaaaagttaagggacttctggccttaagtattacttattaaacatagagtgtcaatagtagtgggtgacaaaaattgtcagcacgatacttgcataaaaattggatccttctgtgttgaatattgatatttataagaaaaatgttttcctgaacctgctgtccaattccaaagtattctatattagctgtatgttatgaataggcactccctctgattcagaaacatgcatcactgtatctacaggtaatcagcagaaagaaatgatccaatgtaggcatgtactattcagatcgactagaaattcgtaaaagcatctaaaaccaccaatactaatcagcttgtgaatataaacaccaaaataaaacctacccccaaaactagtgaatggtactgcaaatgccacatcaatatgcacatcaacatttaacaatgcaatgtcccatcttatagttacttgattcaattctttaggaatggcacgtgtatcagaaacaacaataagtaacgacagttcacactacccctggcaatcagattctaatactctttgttatgcaggaaattgctgaatcacacaacaaaacacaatataagaaccgaaccatgatgccgttattttccagaagttcattacgatgcccttttcagaaattccaaaaacatcggcattattgatcagatcggcagtgagcaactagttcatgggaatcatgcaaagcgtgtccgcagAaaaaaaaaatcccaaccacgctaatccacaacagcaacagaccataatcagctagaaccaaatccaccagctagggtgagcgcgaaacctcttgacgacgaagagcgacccctccacaggcctccggctctgcagaaaacgcgcgcgcgtgcgccgagagccacAaaaacgaatcagagtcggggctttggcgcggcgggaacgtagggttagcaccagagttatacccattggtggatgttgtcgtcgaagctgtagaggacgacgtgcgcggcgatgatgaggatgtcggcgacggcggggtcgaggcgacgcagcaccgtgaggttgagcgtccgcgtgccctcctggtcgctcgccaggtcgggcctcacattcagtctcctCcacctcccgcctccgctcccgccgcgcgccatggccgcgcccgcccccctcgacctcctcgccggaaaccctagcggccgcgcggcgcgggaTtttttttccttctttccgcgctggattatggagccaggaggggaggttttgatcac More
CDS seq		atggcgcgcggcgggagcggaggcgggaggtgGaggagactgaatgtgaggcccgacctggcgagcgaccaggagggcacgcggacgctcaacctcacggtgctgcgtcgcctcgaccccgccgtcgccgacatcctcatcatcgccgcgcacgtcgtcctctacagcttcgacgacaacatccaccaatggtttattgtcatgaatcgtaaaaatacagaaaatctgaccgaagatctcttggggggttttgaatatcaagtacaagtcccttacatcatgtaccacaatgctgcagacgaaatcacaggaatttggttctatgatcctcaggaatgtgaacaagttggatatcttttcagtaggatacagaaggcattttccagggtgtcccCaaaggccaaggtttctgtaactgaaagtgagtatgaaaagccggaagtagtgcctgctgttccttcgaatgaggatactctaaaacagccaacgtcatctatcatggtgctggataatgcgaagtatgatttcttgtcggctttgctaaagggtgctgcatgtgttggtgctaccatggacgaagcaagtgcagtacagtcaaacaaatctgttgggatggttcattcatctactcatgcgtcacctcatgctattccaccacaatctcctgcaatacagtcaaataaatctttcgggatggttcattcatctactcaggcacctcttgctattccaccacaatctcctgcagtaaggtcaaacaaatctgttgggatgattcattcatctactcatgcatcaccttttgatatcccaccacaatctcctgcagtacagtcaaataaatctgttgggatgattcattcacttactcatgcatcgcatcttgctattccaccacaatctcctgctttgcatggtctgcatccttctcaaatttcatcagttcctgtgatgccccatgatgctcatagatctagtagcacttctaccatccagcctacaagtctagcaaatccgttgttctttcctccgatgccatctttgcagacagcttctcatgctgcttcgtcattgtgttctgctgctcctcttcatcctcccattaccgttcagcagcttcaaagtgctcccttgcaccagcccttctccctaccgactgcatcgtccattccaccaccatatggcatgccattactgcagccatttccaccgcccaacccttccccatttcttacctcgggagtgtcttatggccgcccagtgatcacaagagaccaactgaaggatgtgctactgagtctttgtcagaatgatgaattcatcgatatgatatatcgggagttcgtgaagagacagttaccttga More
Protein seq		MARGGSGGGRWRRLNVRPDLASDQEGTRTLNLTVLRRLDPAVADILIIAAHVVLYSFDDNIHQWFIVMNRKNTENLTEDLLGGFEYQVQVPYIMYHNAADEITGIWFYDPQECEQVGYLFSRIQKAFSRVSPKAKVSVTESEYEKPEVVPAVPSNEDTLKQPTSSIMVLDNAKYDFLSALLKGAACVGATMDEASAVQSNKSVGMVHSSTHASPHAIPPQSPAIQSNKSFGMVHSSTQAPLAIPPQSPAVRSNKSVGMIHSSTHASPFDIPPQSPAVQSNKSVGMIHSLTHASHLAIPPQSPALHGLHPSQISSVPVMPHDAHRSSSTSTIQPTSLANPLFFPPMPSLQTASHAASSLCSAAPLHPPITVQQLQSAPLHQPFSLPTASSIPPPYGMPLLQPFPPPNPSPFLTSGVSYGRPVITRDQLKDVLLSLCQNDEFIDMIYREFVKRQLP
Function		mRNA-decapping enzyme-like protein [UniProtKB/Swiss-Prot:Q9SJF3]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsPr106_03g0040740	OsPr106_03g0040740.01	Chr03	37586560	37591881	-	NAM
CDS seq	atggcgcgcggcgggagcggaggcgggaggtgGaggagactgaatgtgaggcccgacctggcgagcgaccaggagggcacgcggacgctcaacctcacggtgctgcgtcgcctcgaccccgccgtcgccgacatcctcatcatcgccgcgcacgtcgtcctctacagcttcgacgacaacatccaccaatggtttattgtcatgaatcgtaaaaatacagaaaatctgaccgaagatctcttggggggttttgaatatcaagtacaagtcccttacatcatgtaccacaatgctgcagacgaaatcacaggaatttggttctatgatcctcaggaatgtgaacaagttggatatcttttcagtaggatacagaaggcattttccagggtgtcccCaaaggccaaggtttctgtaactgaaagtgagtatgaaaagccggaagtagtgcctgctgttccttcgaatgaggatactctaaaacagccaacgtcatctatcatggtgctggataatgcgaagtatgatttcttgtcggctttgctaaagggtgctgcatgtgttggtgctaccatggacgaagcaagtgcagtacagtcaaacaaatctgttgggatggttcattcatctactcatgcgtcacctcatgctattccaccacaatctcctgcaatacagtcaaataaatctttcgggatggttcattcatctactcaggcacctcttgctattccaccacaatctcctgcagtaaggtcaaacaaatctgttgggatgattcattcatctactcatgcatcaccttttgatatcccaccacaatctcctgcagtacagtcaaataaatctgttgggatgattcattcacttactcatgcatcgcatcttgctattccaccacaatctcctgctttgcatggtctgcatccttctcaaatttcatcagttcctgtgatgccccatgatgctcatagatctagtagcacttctaccatccagcctacaagtctagcaaatccgttgttctttcctccgatgccatctttgcagacagcttctcatgctgcttcgtcattgtgttctgctgctcctcttcatcctcccattaccgttcagcagcttcaaagtgctcccttgcaccagcccttctccctaccgactgcatcgtccattccaccaccatatggcatgccattactgcagccatttccaccgcccaacccttccccatttcttacctcgggagtgtcttatggccgcccagtgatcacaagagaccaactgaaggatgtgctactgagtctttgtcagaatgatgaattcatcgatatgatatatcgggagttcgtgaagagacagttaccttga More
Protein seq	MARGGSGGGRWRRLNVRPDLASDQEGTRTLNLTVLRRLDPAVADILIIAAHVVLYSFDDNIHQWFIVMNRKNTENLTEDLLGGFEYQVQVPYIMYHNAADEITGIWFYDPQECEQVGYLFSRIQKAFSRVSPKAKVSVTESEYEKPEVVPAVPSNEDTLKQPTSSIMVLDNAKYDFLSALLKGAACVGATMDEASAVQSNKSVGMVHSSTHASPHAIPPQSPAIQSNKSFGMVHSSTQAPLAIPPQSPAVRSNKSVGMIHSSTHASPFDIPPQSPAVQSNKSVGMIHSLTHASHLAIPPQSPALHGLHPSQISSVPVMPHDAHRSSSTSTIQPTSLANPLFFPPMPSLQTASHAASSLCSAAPLHPPITVQQLQSAPLHQPFSLPTASSIPPPYGMPLLQPFPPPNPSPFLTSGVSYGRPVITRDQLKDVLLSLCQNDEFIDMIYREFVKRQLP More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsPr106_03g0040740	OsPr106_03g0040740.02	Chr03	37586526	37591847	-	IsoSeq
CDS seq	gcgcggaaagaaggaaaaaaaAtcccgcgccgcgcggccgctagggtttccggcgaggaggtcgaggggggcgggcgcggccatggcgcgcggcgggagcggaggcgggaggtgGaggagactgaatgtgaggcccgacctggcgagcgaccaggagggcacgcggacgctcaacctcacggtgctgcgtcgcctcgaccccgccgtcgccgacatcctcatcatcgccgcgcacgtcgtcctctacagcttcgacgacaacatccaccaatggagccggaggcctgtggaggggtcgctcttcgtcgtcaagaggaacacccaacccagattccagtttattgtcatgaa More
Protein seq	ARKEGKKIPRRAAARVSGEEVEGGGRGHGARRERRREVEETECEARPGERPGGHADAQPHGAASPRPRRRRHPHHRRARRPLQLRRQHPPMEPEACGGVALRRQEEHPTQIPVYCHE

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.000000	0.0	3.801205

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_03g0837000	RBH	0.000000	0.000000	1.115197
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os03g62080	RBH	0.000000	0.000000	0.130291
Nipponbare \| IRGSP 1.0 \| RAP-db	Os03g0837000	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_03g0041260	RBH	0.000000	0.000000	0.560669
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_03g0040930	RBH	0.068561	0.000000	0.496649
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_03g0041000	RBH	0.000000	0.000000	2.337782
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_03g0041230	RBH	0.0	0.000000	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_07g0008920	RBH	2.399649	9.924335	7.307189
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_03G0600500	RBH	0.1304525	0.4547495	1.658802
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_03g0040500	RBH	0.0	0.0	0.319750
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_03G0602900	RBH	0.007102	0.361656	1.815961
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_03g0041070	RBH	0.0	0.071772	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_03g0040980	RBH	0.107382	0.000000	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_03g0040670	RBH	0.0	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_03g0040730	RBH	0.000000	0.000000	0.539725
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_03g0040780	RBH	0.0	0.816348	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_03G040560	RBH	0.0	0.0	0.000000
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_03g0040270	RBH	0.0	0.0	0.399631

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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