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
OsZS97_03G0434700		OGI:03070760 \| 16/16			Zhenshan 97 \| ZS97RS3 \| HZAU			Chr03:27453902-27459529		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		MSL16, OsMSL16
DNA seq		TTAGCAATAATCCAAACAACCTGCAGATTATTTTGATTTTCAGCATTCATATATATCATAATGATCTCAGAAATAACCATGACTTTGAACATTAGTTCGATAAAATATCATTTCTGTCAAGCATATATTTGAAGATAAACTATTGTTGGCAGAAAAATCATACCATACTCAGTTTCAGGTAGAAATCTTGAGACGTCAGATAAATATGCAATTTTTGCTTTCCTCCCAAATAGGAAGCCTAAACAAATATTACCCTCTCCATGCATGACCTGAAAACAAAAATAGCAAAGTTAGCGACTTCAAAGAGAAAAAGGAGAAACCAAAGCAGCACTTCAAATTAACAACAGTGGCTCTCACAGGCAAAGGCACAAACTCTAGCCCTGATGATACAAATGGCTTGTCAATATCACCCTCAATTATCCTCCAATCGAGTTGAGCGACTTGGGAAACTTCGTCACCTTCCTCTAGCTTATTTTTCAGTAAGTAGGGGAACCTTGCTACAACACTGTAAAAATAGTGGCCGATGTTACAAGGTAATACATGGTAATGATAACCAATATGACATCTGTTATATGTCTAGTTGTGATAGAGTGACCTGTCCATTGTGAATTGGGTAAGAAAAATCGGAACTCGGCGGAAATCATTGCTGCAACCCTTTGGTTGAACCATCCAAACGTCGTCAAGACCTAAGACAGCATCCGCGTGCTCATGAGTGAGAATAATCTGCACCGCACATGACCTTATTAGGGCATCAACAATGGTGTGACTTCACCATCTAAGAGAGAATGCCATGTAGGAATTTCTATGATGTGGGAGGCAAGAGAAAGAGGAGAGAGAAGGACGCCGTCTGTTGATTACCAAACTCCGCCAAATTAGGGGATGTCCCCTCGAGGGGATGAAAATCCACATCCATAATAGATCGGAAAGTGATTTCATTACTCGAGGGGATATCCTATCGTTTCGTGCATGCCACCTAAATAGGTATCAAAATTTTTTAAAAAAATTTGGCAACATAGATTAATATGAAATATATCACTCTATAAACATGCAAGTTTAAAATCAACTTCTACAAGCTGTAACAAAAATAACAAATATAGCTGTGAATGTACGATAACTATTTTCAATTTAATTTGTTCTTTTTGTTGCAACTTATAGAAGTTGAATTTAACTTGCATGTTTGTGAAGTGATATATTTCATATTAGTCTATGTTGTCAATTTTTGTCAATTTTTTTATGACTATTAAAGTGGCATGCAAACAACGAGGAGATGTTCCCTAAAGGGATGAAAATCCACATCGATGATAGATCAATTTCTATGTACCAGTTCACCCAAAAGAAAATAAACTGAAAAAAAATGGACAGTGCAGTACTGGAGATCTCACCGAGTTAACCCAAGGAATCTTGTGATGAACAAACCACCGGAGAACCTGTTCTCTAAAGGTCTTGCCGACATCGATTATAATGTACTCGTGGGTTCCATCGTCTTGGCAGTAATCTATCAAGAGGGAGGTGTTACACCTGAAAGAGAACAGAACGTTCAGCTCCCCCACATTAAGGCTTTGTTTAGCATCATGGTGACTCTAAAAAATGCAATTTTATTTCGTCCTTCTTGATACAGTAACTAGTTTGAAAGCATCTTTGAAGTCATTTGGCCGTGTGCATTCACCTTATGATGCAGAGGCCGCGCGCTGCCCATTATCTAAAAAATAATAATCTTTGAAGTCATACCAACAGCATTACTGGATTGATACAGATTTCCTAAAGATAACTGCATTCAGTTATGTAGGACAGCGTAACAATGAGAAATTGACACTTAAAACAGAGACGGGTTAAAGGCTTAGAGCCCCTTTGAATCGCATGATTGAGAAAACAGAGAAATAGGAAAAACATAGGAATTGAATGCCACACTTATTGGATTCCTATGAGATTTTGAAACACAAGAAAGTCTTCAAACTGTCGTTTGATTAGCACACAGGAAAAACGCTGGAACCTTGACACATAAAGAGGAAAACATGAGGTGAGAGTCATGCTTATTTTCCTCTAAAATTGCTCTAGTAAGGTTCATTCCATAGGAATTTCAAAGGAATTGATAGGAAACAATCCTTTGTTTCAAAGGACTCTATAGAATTATTTCTTATAGGATAAAATCCTCTAGAATTCGTATGGTTTTTCTTTGATTCAAACGGGGCCTTAAAGGGCAGGACAGGTTACAGTAGCACTAGGAGATGCTCTGAATCAGGCTGGTCGATATATATTTTGAAGGCCACAGGATATTGACTGCAAGCGCACCTGTAATTGGGGTTTTGCTCCGGTGGGAGCGAGACGCCCAGGGAGCAGACGGCGCACGGCGGCGCGGACGGCCTGAGGAGGCACCGCGTGTCGGGGAGCGCGCCGGAGCAGCCGGTGCCCAGGAAGATGACCGACGACGACGGCGGCGGCGGCGGCAGAGCAGCGTCTCCGGCGGGAGGCTCCATCGCTGGCTTGATAAACTCTTTGCTGCTCTTTTGCTGCGGAATGGGGAAGATTTTGTGCTCGGTTGGTGTGATCTTTGTATATATATAGAGAATGCATCAAATTTTCTTGCTATGCTTCTCTCCTCTTTCCTCTTGCTCATCTTTGAGATTTAGTGGAGTTGGTATTGCATTTGCATCCTTCGGCGATGGTGCCGACGGCGGGAAGTCGTTTTCCATCTTTCTTTTGAGGACTTGACTGAAGTATGAAATAGTTTTAGTTTTTTATTGTTTGATCTTTCAAATGCCAGATTGCCAATACACTAATCCCATGTTTCACATCATATCCATCTGTGCTTCACGTTTTCAGACTGCATGTTCAGTTTTCATCAGTTGTAATTTTACCTACTTGGCTACTTGGAATAATCTCATTGATTAAAAAAACAGGGTATGTCTTGGAATGAAGGAATTCATGATTTTATAAGTTTATCACAAGATTCCCGATTTCTTGTTGCTTCGAGAAATGTATGAACAGTAATAGTAAATATGTATATACAAAATTGGTTTGGAGTAACCTACCTCTAGCTTCAGTGTCAGTGCAAATCTGAACCCATGTGGTAAGGTCAAGTGAGCTCAGGCAGTAATTGATTTGAAGTGGTCAAACAATTCACTCACTCAAAAGATTAGCACAAAAGTTCCAAATGAATGACAACGGTGGACTTCCTTATGTACATATACATAAAAGAAAGTTTCTTCCCATTCACTGCCAAGACAAACCTTTGCATCCATCATTCTTTTCTCCTTTTTACAGAATGCGTGGTTTGAATCATTCACATTTACTACTAGCTCCAAAGTCTAGATGAATGCAATAAATATATGTTTTTTACATTATTTTCCTAGTTTACATTTTTGAATCGTGTGATTTAAGTAAAAGAGAAAGGGACGTACATATATCAGATTCAGCTTTTTCGGGTATATTCATACAACAATTCCCCTACTAGAGGCAGGAGACAACTTGACATCTGAGTAAAGAAAATATATGATGATATCAGGAAAACAATGTTGCTCAAATTTGGATTGTGTACTATGATGCATACCAAATTACAGGTTAATAAACACGCGGAGGCCGTCATGAGCTAATTGTACAGGTATCCCTTCTCTACGATCACCCAATTTTACAAGTTAGACAGTTCAACCAGACAATAGATGTGTGCATATAAAAATGTTTCAGGAACCATCCGTCTATGCATACCTGCTAGACCATTCTGCCAGCTTCTGATTTTCTTTGTAGTATTCGATCTCATGTGCCATTCCAGTCAGCAAAGCTCTCTTAGGGCTTATCCTCTTCACAGCATCAAGAGCCTGAAAAAAAAATAATGTTGGGAGAAAATGTTGGGTTGGTTGCTCCATCTTGACAGGTATGGATATAATTCTGATAGGGACTAGGCCAATATTGCTTTGTTTGAGCTATCCTGTTCTGTAGGGTGCTTTCATGGAGAGCAGGCAGATTGTATGTCAACAAATTATCTACCTAGTTACTGCAAAAAAAAAATCAGAAAAATATTTAAAAGGTCTTAACAAATTCAACCTCATTCAGAGGAAGATGGTTACTACGAGCACCTCCCTGTTCACAGAGGGTAAAGTGTATACCAGATTATCGGCAGATATGTGTGAAAGGATATCAAATTATGCTGTTTCAAATGACAATCATGTGGCACAGACCTACCTCCCCATGCAAACTGTTAGCTTCTAGTATAAGAAGATCAAGTTGCCCAGCACCAGACTTTGAAATGGCTGCATGAAAAAATGGCATCCTCTATTCTCCAGTAAAATTGGAACAATCAAATAGGATTCAATACAGCCCAACTACAAAAGAATATCTACAGATTACATGTGATTTTTAGTCATGTTAATGCTAGTTCATCGCCGATGTGATTATAGTTCATCGCCAAAAAAAAATATTGATACAGATATTACTAAATTTGATAAGCTTAAATAACAACAAATCCTTTAAAGATTTAAGATAATTTTGCTGCCGGACATAGTTAAATGTTGCCAATTGCAAAAACATATGAAATCTATTGAGCTGACAAAAATTGAGAAGTTGGTTTAGGAAGAATAGAAACAACCTGCAAATTATCTTGATATTCAGTATTCTGATATATTTTGATGATCACACAAACGACCCTCAAAGATAGTGACATAATATGTTTGATAAAGATCATTTCTTTAAACAAAAACAAGCATTTTACTATTTGAAGAACTATTGATGTCAGAAAAATCATACCATGCTCAGTTTTAGGTAAAAATCTCAAGATGTCGGATAAATATGCAATTCTCGCTTTCCTCCCAAATAGGAAGCCTAAACAAACATAACCCTCTCCATGCATGACCTGAAAAGGGAATAGCACGCTAGCGACTTCAAAGACAACACATAGAGAAACCAAAGCAGTGCATCAATTCACAACAGTGGCTCTCACTGGCAAGGGCACAAACTCTAGCCCCGATGATATAAATGGTTTTTCAATATCACCCTCAATTATTCTCCAATCGAGTTGAGCAACTTGGGAAGCTTCATCACCTTCCTCTAGCTTATATTTCACTAAGTAGGGGAATCTTGCTGCAACGTTGTAAAAAAACAGTAGCTGATGTTATGTGATAATACACGGTAATGATAAAAAATATGATATTATCTCGTTAACATATTTGGGGCGCAAGAATGACCTGTCCATTGTGAATTGTGTGAGGAAAACAGGAACTTGGCCAAAATCATTTCTTCCATCACTTGGTCGAATCATCCAAACATCGTCAAGACCTAGGATAGCATCCGCGTGTTCGTGAGTAAGAATAATCTGCACTGCACAGGGCCTTATTAGTCATGACATCTATAAGGATTGATCATCATCCAAACGCCATCAACATAGTGAATTTATAAATTAGTTATTTGATTTTATATACAATCCATGTAACGGTATATATTGTATAATGCTACCTATAAGATGACAAACAGATGACCACCTTCTCTCCTTTCCCTCTGCTCTAGATCACCCTGGATCCTACATGGCATCCCTCCCAGAGACCGCTTCCTCGAAGTTCAAGTATTTTCCTTGAAAACCTGTGATTCTGTTCCTTCCAAATGCTCAACCAAGTATGGATATGAGACCATTGAAATCTCCAT More
CDS seq		ATGGAGCCTCCCGCCGGAGACGCTGCTCTGCCGCCGCCGCCGCCGTCGTCGTCGGTCATCTTCCTGGGCACCGGCTGCTCCGGCGCGCTCCCCGACACGCGGTGCCTCCTCAGGCCGTCCGCGCCGCCGTGCGCCGTCTGCTCCCTGGGCGTCTCGCTCCCACCGGAGCAAAACCCCAATTACAGGTGTAACACCTCCCTCTTGATAGATTACTGCCAAGACGATGGAACCCACGAGTACATTATAATCGATGTCGGCAAGACCTTTAGAGAACAGGTTCTCCGGTGGTTTGTTCATCACAAGATTCCTTGGGTTAACTCGATTATTCTCACTCATGAGCACGCGGATGCTGTCTTAGGTCTTGACGACGTTTGGATGGTTCAACCAAAGGGTTGCAGCAATGATTTCCGCCGAGTTCCGATTTTTCTTACCCAATTCACAATGGACAGTGTTGTAGCAAGGTTCCCCTACTTACTGAAAAATAAGCTAGAGGAAGGTGACGAAGTTTCCCAAGTCGCTCAACTCGATTGGAGGATAATTGAGGGTGATATTGACAAGCCATTTGTATCATCAGGGCTAGAGTTTGTGCCTTTGCCTGTCATGCATGGAGAGGGTAATATTTGTTTAGGCTTCCTATTTGGGAGGAAAGCAAAAATTGCATATTTATCTGACGTCTCAAGATTTCTACCTGAAACTGAGTATGGTATGATTTTTCTGCCAACAATAGTTTATCTTCAAATATATGCTTGA More
Protein seq		MEPPAGDAALPPPPPSSSVIFLGTGCSGALPDTRCLLRPSAPPCAVCSLGVSLPPEQNPNYRCNTSLLIDYCQDDGTHEYIIIDVGKTFREQVLRWFVHHKIPWVNSIILTHEHADAVLGLDDVWMVQPKGCSNDFRRVPIFLTQFTMDSVVARFPYLLKNKLEEGDEVSQVAQLDWRIIEGDIDKPFVSSGLEFVPLPVMHGEGNICLGFLFGRKAKIAYLSDVSRFLPETEYGMIFLPTIVYLQIYA
Function		Putative hydrolase C777.06c [UniProtKB/Swiss-Prot:O74545]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsZS97_03G0434700	OsZS97_03T0434700.1	Chr03	27456472	27459529	-	makerRMon
CDS seq	ATGGAGATTTCAATGGTCTCATATCCATACTTGGTTGAGCATTTGGAAGGAACAGAATCACAGCTACTGTTTTTTTACAACGTTGCAGCAAGATTCCCCTACTTAGTGAAATATAAGCTAGAGGAAGGTGATGAAGCTTCCCAAGTTGCTCAACTCGATTGGAGAATAATTGAGGGTGATATTGAAAAACCATTTATATCATCGGGGCTAGAGTTTGTGCCCTTGCCAGTCATGCATGGAGAGGGTTATGTTTGTTTAGGCTTCCTATTTGGGAGGAAAGCGAGAATTGCATATTTATCCGACATCTTGAGATTTTTACCTAAAACTGAGCATGCCATTTCAAAGTCTGGTGCTGGGCAACTTGATCTTCTTATACTAGAAGCTAACAGTTTGCATGGGGAGGCTCTTGATGCTGTGAAGAGGATAAGCCCTAAGAGAGCTTTGCTGACTGGAATGGCACATGAGATCGAATACTACAAAGAAAATCAGAAGCTGGCAGAATGGTCTAGCAGTCAAGTCCTCAAAAGAAAGATGGAAAACGACTTCCCGCCGTCGGCACCATCGCCGAAGGATGCAAATGCAATACCAACTCCACTAAATCTCAAAGATGAGCAAGAGGAAAGAGGAGAGAAGCATAGCAAGAAAATTTGA More
Protein seq	MEISMVSYPYLVEHLEGTESQLLFFYNVAARFPYLVKYKLEEGDEASQVAQLDWRIIEGDIEKPFISSGLEFVPLPVMHGEGYVCLGFLFGRKARIAYLSDILRFLPKTEHAISKSGAGQLDLLILEANSLHGEALDAVKRISPKRALLTGMAHEIEYYKENQKLAEWSSSQVLKRKMENDFPPSAPSPKDANAIPTPLNLKDEQEERGEKHSKKI More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsZS97_03G0434700	OsZS97_03T0434700.2	Chr03	27453902	27456656	-	makerRMon
CDS seq	ATGGAGCCTCCCGCCGGAGACGCTGCTCTGCCGCCGCCGCCGCCGTCGTCGTCGGTCATCTTCCTGGGCACCGGCTGCTCCGGCGCGCTCCCCGACACGCGGTGCCTCCTCAGGCCGTCCGCGCCGCCGTGCGCCGTCTGCTCCCTGGGCGTCTCGCTCCCACCGGAGCAAAACCCCAATTACAGGTGTAACACCTCCCTCTTGATAGATTACTGCCAAGACGATGGAACCCACGAGTACATTATAATCGATGTCGGCAAGACCTTTAGAGAACAGGTTCTCCGGTGGTTTGTTCATCACAAGATTCCTTGGGTTAACTCGATTATTCTCACTCATGAGCACGCGGATGCTGTCTTAGGTCTTGACGACGTTTGGATGGTTCAACCAAAGGGTTGCAGCAATGATTTCCGCCGAGTTCCGATTTTTCTTACCCAATTCACAATGGACAGTGTTGTAGCAAGGTTCCCCTACTTACTGAAAAATAAGCTAGAGGAAGGTGACGAAGTTTCCCAAGTCGCTCAACTCGATTGGAGGATAATTGAGGGTGATATTGACAAGCCATTTGTATCATCAGGGCTAGAGTTTGTGCCTTTGCCTGTCATGCATGGAGAGGGTAATATTTGTTTAGGCTTCCTATTTGGGAGGAAAGCAAAAATTGCATATTTATCTGACGTCTCAAGATTTCTACCTGAAACTGAGTATGGTTGTTTGGATTATTGCTAA More
Protein seq	MEPPAGDAALPPPPPSSSVIFLGTGCSGALPDTRCLLRPSAPPCAVCSLGVSLPPEQNPNYRCNTSLLIDYCQDDGTHEYIIIDVGKTFREQVLRWFVHHKIPWVNSIILTHEHADAVLGLDDVWMVQPKGCSNDFRRVPIFLTQFTMDSVVARFPYLLKNKLEEGDEVSQVAQLDWRIIEGDIDKPFVSSGLEFVPLPVMHGEGNICLGFLFGRKAKIAYLSDVSRFLPETEYGCLDYC More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsZS97_03G0434700	OsZS97_03T0434700.3	Chr03	27453910	27456656	-	makerRMon
CDS seq	ATGGAGCCTCCCGCCGGAGACGCTGCTCTGCCGCCGCCGCCGCCGTCGTCGTCGGTCATCTTCCTGGGCACCGGCTGCTCCGGCGCGCTCCCCGACACGCGGTGCCTCCTCAGGCCGTCCGCGCCGCCGTGCGCCGTCTGCTCCCTGGGCGTCTCGCTCCCACCGGAGCAAAACCCCAATTACAGGTGTAACACCTCCCTCTTGATAGATTACTGCCAAGACGATGGAACCCACGAGTACATTATAATCGATGTCGGCAAGACCTTTAGAGAACAGGTTCTCCGGTGGTTTGTTCATCACAAGATTCCTTGGGTTAACTCGATTATTCTCACTCATGAGCACGCGGATGCTGTCTTAGGTCTTGACGACGTTTGGATGGTTCAACCAAAGGGTTGCAGCAATGATTTCCGCCGAGTTCCGATTTTTCTTACCCAATTCACAATGGACAGTGTTGTAGCAAGGTTCCCCTACTTACTGAAAAATAAGCTAGAGGAAGGTGACGAAGTTTCCCAAGTCGCTCAACTCGATTGGAGGATAATTGAGGGTGATATTGACAAGCCATTTGTATCATCAGGGCTAGAGTTTGTGCCTTTGCCTGTCATGCATGGAGAGGGTAATATTTGTTTAGGCTTCCTATTTGGGAGGAAAGCAAAAATTGCATATTTATCTGACGTCTCAAGATTTCTACCTGAAACTGAGTATGGTATGATTTTTCTGCCAACAATAGTTTATCTTCAAATATATGCTTGA More
Protein seq	MEPPAGDAALPPPPPSSSVIFLGTGCSGALPDTRCLLRPSAPPCAVCSLGVSLPPEQNPNYRCNTSLLIDYCQDDGTHEYIIIDVGKTFREQVLRWFVHHKIPWVNSIILTHEHADAVLGLDDVWMVQPKGCSNDFRRVPIFLTQFTMDSVVARFPYLLKNKLEEGDEVSQVAQLDWRIIEGDIDKPFVSSGLEFVPLPVMHGEGNICLGFLFGRKAKIAYLSDVSRFLPETEYGMIFLPTIVYLQIYA More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.2953825	11.360814	0.244683

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_03g0642900	SBH	0.0	0.0	0.000000
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os03g44100	SBH	0.0	0.0	0.000000
Nipponbare \| IRGSP 1.0 \| RAP-db	Os03g0642900	SBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_03g0027780	RBH	0.0	1.367730	0.0
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_03g0027520	RBH	0.0	0.0	0.0
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_03g0027590	SBH	0.000000	3.063207	0.0
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_03g0027610	RBH	0.0	0.0	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_03g0027380	SBH	0.0	0.0	0.000000
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_03G0432300	RBH	0.2319095	0.805307	0.1497165
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_03g0027150	RBH	0.0	0.000000	0.093437
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_12G0380200	RBH	3.829146	10.008831	17.4958305
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_03g0027420	SBH	0.000000	0.000000	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_03g0027450	RBH	0.0	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_03g0027530	SBH	0.000000	1.754211	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_03g0027260	SBH	0.0	0.193247	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_03g0027230	RBH	0.0	0.000000	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_03G027230	SBH	0.000000	0.0	0.0
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_03g0027230	RBH	0.000000	0.000000	0.000000

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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