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
OsNaBo_01g0038860		OGI:01107590 \| 16/16			NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)			Chr01:36507174-36512846		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		accgagttccacctcccaaacccctcaaccctcgccgccgccgccgccgccgccgctcgtcgctctgCTccgccgcagccatggggaagttccgcaagctcggccgccacgccgcccaccgagtatccatgctcaggtaccatttggcctcgatccttctctctcgagcgcgagatccgcatctctctgtgtgtgtcggagtcatggacatgtctgttcggcaggacgatggtgtcgcagctcgtgaagcacgagcgaatcgagaccaccgtcgccaaggtacgtactctctcctttccgcctaggatctggtcgaacaccttgtagagtgggggcgcctcggatttatgtgctgggagtcgtggttgattccaggcgaaggaggtgcggcgcaaggcggatcagatggtgcagctcgggaaagaggtaaaaactgctacctgtaaaacattctcctgttgccatagaactataacctgaaaaaaattactgtttagtgccatccatgaacctatgtagagctttggattgccgcaTttttttttgcacaaccgcgcacacagttctgtagtacgagtaactagtaagcatggatgagtacttgattagttccatgagcgtgacattttgtttactgttaaatttcgtacaagagatgaattgactattgagggatgtagggatgtgtcttcacaagaatggcagtatggaaacaatttaCTctctccatcttgaaatataagcatttctgattttgtcctaactcaaactatcctaagtttgaccttatagaaagaaagcaacaatatccacgatatcaaatgagtatcattagatccattatgaaatatattttcatactttacctattagacatggtagtagatgttaatattcttctctatacacttgatcaagaacaaaattagaaatgcttatattttgggacggtgtgagtaatgctttacatcgtggttttaatcagattcaaatgagTtttctacttttgtattttaTtttctctcttcgttatgagatggttgaaatgttcaagtcatatagctaatcaatgattggttgtctgataaattgtctcaagtttctgttacatactaggcgatccatctgaatgatgtcttcttgttttggagtcgatgctacataagccttcctgtgattgtgccattctgcatgttaccttaagcgtcttttgatctggctggaatgttgcattgatttatttaagtctattcttaaaggtattcgtccagaaacttatcttttatttgcataaattatagggcacattggatgcagcaagacgtgcctctgcttttgttcggggagatgatgttgttcataagctatttacagagctagcgtaccgttacaagtaaaactccttcatgtgttgtgtatcaatttgatttgtttctaccactgtttaaaaatatgtcatgttagcatctcacataaggaataaagtaaaatgcctaccatggtctttgtacaatgcatctaaaaggtgtaggattttatgcatcacaaaattgtaatactagaacgctatgtactggtagcatagggtcataatatttttaggtcgatcctaatgattcttttgtcccttttgaatttaggaaccgagctggtgggtacaccagactattgcgaactaggatacgagttggtgatgctgcaccgatggcatacattgagtaagcttctcttatgatttttaaaatggaaaattgatcagtgacctttccattgggttattagtcagtttttttttttgcggggaattagtcagttttgttattcgcttacttttactttgtgtttgctattaaaaaattactaccatgccaccgacttgtttttgcccctgcttcacgtggaacaatcgactggttgagtataaaattcagcatcatgcagtgttttttaaatgaaagaagctagcgtgctaaaagcatcttcaaaccatgcaaagTtttttttttctaaaatgctgagttttagctggctgtgccagaaATatatcatcatatcaaattcccagaaatcataacttgctgttttgcagcccaagtcactcgctgtcttcatctgcaggttcgttgatagggaaaatgaacttcgagaagccaaacctgcaacaccacagccacctcaacggtctcctcttgatccctgggccaagtctcgtgctagccaacagtgggcgggacctaaaatcagcgagggctctagaaaagaaggcttatgaaaataATattcatgtgttgagttccttgagactgtattcaattttctgtactaggctatgaggcaccagcttgtcattttggaggagttttgtcacgagatatattgtcagtagAATaatttgaacttggctgcttacttttaacaaagcctgatgccctcatgagatgtgtatcatgtatgactgcaaatcattcattgagatatgaaatgcagaattatccatacctgtattattcccggaagaatatcggtggagtactggatttcctatagctgatgTatatgagtCccccttgccaattcgtgattgggttagatgctattcgttctggctattgtgtgtacactgtatacatgtttcttttctgtagactgtagctactgacttcctacatgtccggatcctctgacgtactttattctacgtcagagggatgttcgaccatggatcgccgttccttgcgcatccgacgtactttattctacgtcagagggacgttcgaccatggatcgccgttccttgcgtatccgacggcaacaaccgtttcagtctcgtcacttgtctcaggccccacagcgcaatgtctctgtctgctctccggcccattcattgatagggacagcggtgccgcgccggccgccggagagctcaagccgccgcacactgtcgccagcggggaggttggactaggacgcggtgctagcgccgttcgccggcgaggtcgagggcgacggctacgcccgccttggtgtttgctatttgtcccatcgcacagagactgctgttctcggaaccgtcgccggcgaggttggattggaatcgatctgtagccgatcgaacttccatcatcaagttgccttttctcatggaagaggcagctggttgaaaatcttgctaaggcattcgtgctgtcattaacttgtcccagaaactacaagtaacctgaagaataaaattcagagctaaccagaagaaaagaaaccaaaactttgccaacagattcacagtagaatgcgacatagcaagtctacaattgcaataagaaaataccaaagaagatggtttttttccttgaagaagagatcaatcgagtgcagatgttaaccaagtaaagaaatctcatggcatgaaatgaagagaagacgagtaacttttctgttctatttgttccccgtatagctcttcgacgacggttccgacaacagcaGCCgctgggcgaagccatcgccctcgatctcgccggcggacagcggtagcaccgcgttctagtccgacctCcccgccggcttcagcgcgcggcggcctgagctccccggcggctggcgcggcgccgctgcccctattaacgaatgggccagagagcaggcagggacatcgcgcttgtggggcctgagacaagagacgggactgaaacagttgttgccgtcggatgcgcaagcaacgacgatctatagtcgaacgtccctctgacatagaatagattacgttagaggatccggttccatgttcaggagatgttgtcattttcggaagtcacaagcaacacaaccaaaaaaagcaaaagtatgtacggagtagatgctagcagcagtggggagatcattctcaagcaagaattccaaaatatagcgactctggatcagatttagtgcatcttccataaaggattatgatgtgTCttatctaattcttagttattatattttgtgacgtggtaataTttattatgttttgaataaatacaaaattcttcaagataggagcaaaccctgtaacctgctagtagtctgcagcaccaacgttctcttcggccgattcggcgattgcatcagactgaccaacaagatacagaaatcctcatcaaccacatccaaagcggcaaagctcgtccgctccaaaaggcccgactttcctgcgatcagatgcagcaccttgggggttccctgaggaccctgacctagcccacggcacagctggtggtgccgttcacacggttccctggatccgcccacaatctgctcgacgaaatgccgcaccgggacgtcgtctcggccacggcggccattggcgcgctcacccgcagcggccggcaccgggacgcggtcgccctcttctccggcattcttggggacggcatcgtgcccaacgagttcaccttcggcaccatcctgcagtcggcgagcgcgctgcgcgaccttcgcgtcggtgcgcagctccacgcctgcgtcgccaagcttggcctctgttccaacgtcttcgtcggcagcgCTctcgtcgaccactacgccaagatgggctccgtgagggaagcccagggcgcgctgcaggacacccgcgagccgaacgtcgtctcttacaccgcgctcattgcggggtttctgaagaatgggatgtctggggatgcagcccggctgttccggtgcatgccggagaggaatgtgatttcttggaacgccatgatcggcggatccagcaaggcaggactcaacgaggaggcagtcaatctgttcctggagatgtgtcgggaaggcgtcaggccgaacgagagcacgtttccctgcttgctcacatccgttgccaatgcaggggcgctcggcgttggcagaagcatccatgcttctgctatcaagttcttgggtaagcttgatgtttttgcgggcaattctcttgtcagcttctatgctagatgtggcagtttggatgacagcgtcctggcgttcaaaaagatcaagaacaagaacgtggtgtcctggaacgcgttgatctgcggatatgcgcaaaatgggaggggggaggaggctttggatgccttcaggaggatgaaagctacaggcttgaagccggatcgtgttactcttcttggcttgctgtttggttgcaaccatgctggtctggttgatgaaggttactcattgttcaggactgccgagatggagcagccgggtgtattgagacctgagcactatgcttgtgtggttgatctcttctccagggctaagcgatttgatgatgccaagcggtttcttgagaaccttcccttcgagccaggcattgtattctggaagtcgttgataggagggtgccagattcactggaatagggagctggctaagagtgtcgcgaagcatattcatgcactggatcctaaggatacttcttcatacatccttctatctaatgtttactctgcagcaggaagctggcaggatgtgtcaatgatcagaagggaaattaaagaaaagggactgaagaggatcactggttgcagttggattgaggtccagaaccaggttcatgtcttcttcaatggagaccgcagacatccaaagagtgatgatatttacatgatgcttgaatcttgtctgaatagcgaggaagatgaggactgccttgtatga 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CDS seq		atgccgcaccgggacgtcgtctcggccacggcggccattggcgcgctcacccgcagcggccggcaccgggacgcggtcgccctcttctccggcattcttggggacggcatcgtgcccaacgagttcaccttcggcaccatcctgcagtcggcgagcgcgctgcgcgaccttcgcgtcggtgcgcagctccacgcctgcgtcgccaagcttggcctctgttccaacgtcttcgtcggcagcgCTctcgtcgaccactacgccaagatgggctccgtgagggaagcccagggcgcgctgcaggacacccgcgagccgaacgtcgtctcttacaccgcgctcattgcggggtttctgaagaatgggatgtctggggatgcagcccggctgttccggtgcatgccggagaggaatgtgatttcttggaacgccatgatcggcggatccagcaaggcaggactcaacgaggaggcagtcaatctgttcctggagatgtgtcgggaaggcgtcaggccgaacgagagcacgtttccctgcttgctcacatccgttgccaatgcaggggcgctcggcgttggcagaagcatccatgcttctgctatcaagttcttgggtaagcttgatgtttttgcgggcaattctcttgtcagcttctatgctagatgtggcagtttggatgacagcgtcctggcgttcaaaaagatcaagaacaagaacgtggtgtcctggaacgcgttgatctgcggatatgcgcaaaatgggaggggggaggaggctttggatgccttcaggaggatgaaagctacaggcttgaagccggatcgtgttactcttcttggcttgctgtttggttgcaaccatgctggtctggttgatgaaggttactcattgttcaggactgccgagatggagcagccgggtgtattgagacctgagcactatgcttgtgtggttgatctcttctccagggctaagcgatttgatgatgccaagcggtttcttgagaaccttcccttcgagccaggcattgtattctggaagtcgttgataggagggtgccagattcactggaatagggagctggctaagagtgtcgcgaagcatattcatgcactggatcctaaggatacttcttcatacatccttctatctaatgtttactctgcagcaggaagctggcaggatgtgtcaatgatcagaagggaaattaaagaaaagggactgaagaggatcactggttgcagttggattgaggtccagaaccaggttcatgtcttcttcaatggagaccgcagacatccaaagagtgatgatatttacatgatgcttgaatcttgtctgaatagcgaggaagatgaggactgccttgtatga More
Protein seq		MPHRDVVSATAAIGALTRSGRHRDAVALFSGILGDGIVPNEFTFGTILQSASALRDLRVGAQLHACVAKLGLCSNVFVGSALVDHYAKMGSVREAQGALQDTREPNVVSYTALIAGFLKNGMSGDAARLFRCMPERNVISWNAMIGGSSKAGLNEEAVNLFLEMCREGVRPNESTFPCLLTSVANAGALGVGRSIHASAIKFLGKLDVFAGNSLVSFYARCGSLDDSVLAFKKIKNKNVVSWNALICGYAQNGRGEEALDAFRRMKATGLKPDRVTLLGLLFGCNHAGLVDEGYSLFRTAEMEQPGVLRPEHYACVVDLFSRAKRFDDAKRFLENLPFEPGIVFWKSLIGGCQIHWNRELAKSVAKHIHALDPKDTSSYILLSNVYSAAGSWQDVSMIRREIKEKGLKRITGCSWIEVQNQVHVFFNGDRRHPKSDDIYMMLESCLNSEEDEDCLV
Function		Pentatricopeptide repeat-containing protein At5g42450, mitochondrial [UniProtKB/Swiss-Prot:Q9FIH2]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsNaBo_01g0038860	OsNaBo_01g0038860.01	Chr01	36507174	36512846	+	NAM
CDS seq	atgccgcaccgggacgtcgtctcggccacggcggccattggcgcgctcacccgcagcggccggcaccgggacgcggtcgccctcttctccggcattcttggggacggcatcgtgcccaacgagttcaccttcggcaccatcctgcagtcggcgagcgcgctgcgcgaccttcgcgtcggtgcgcagctccacgcctgcgtcgccaagcttggcctctgttccaacgtcttcgtcggcagcgCTctcgtcgaccactacgccaagatgggctccgtgagggaagcccagggcgcgctgcaggacacccgcgagccgaacgtcgtctcttacaccgcgctcattgcggggtttctgaagaatgggatgtctggggatgcagcccggctgttccggtgcatgccggagaggaatgtgatttcttggaacgccatgatcggcggatccagcaaggcaggactcaacgaggaggcagtcaatctgttcctggagatgtgtcgggaaggcgtcaggccgaacgagagcacgtttccctgcttgctcacatccgttgccaatgcaggggcgctcggcgttggcagaagcatccatgcttctgctatcaagttcttgggtaagcttgatgtttttgcgggcaattctcttgtcagcttctatgctagatgtggcagtttggatgacagcgtcctggcgttcaaaaagatcaagaacaagaacgtggtgtcctggaacgcgttgatctgcggatatgcgcaaaatgggaggggggaggaggctttggatgccttcaggaggatgaaagctacaggcttgaagccggatcgtgttactcttcttggcttgctgtttggttgcaaccatgctggtctggttgatgaaggttactcattgttcaggactgccgagatggagcagccgggtgtattgagacctgagcactatgcttgtgtggttgatctcttctccagggctaagcgatttgatgatgccaagcggtttcttgagaaccttcccttcgagccaggcattgtattctggaagtcgttgataggagggtgccagattcactggaatagggagctggctaagagtgtcgcgaagcatattcatgcactggatcctaaggatacttcttcatacatccttctatctaatgtttactctgcagcaggaagctggcaggatgtgtcaatgatcagaagggaaattaaagaaaagggactgaagaggatcactggttgcagttggattgaggtccagaaccaggttcatgtcttcttcaatggagaccgcagacatccaaagagtgatgatatttacatgatgcttgaatcttgtctgaatagcgaggaagatgaggactgccttgtatga More
Protein seq	MPHRDVVSATAAIGALTRSGRHRDAVALFSGILGDGIVPNEFTFGTILQSASALRDLRVGAQLHACVAKLGLCSNVFVGSALVDHYAKMGSVREAQGALQDTREPNVVSYTALIAGFLKNGMSGDAARLFRCMPERNVISWNAMIGGSSKAGLNEEAVNLFLEMCREGVRPNESTFPCLLTSVANAGALGVGRSIHASAIKFLGKLDVFAGNSLVSFYARCGSLDDSVLAFKKIKNKNVVSWNALICGYAQNGRGEEALDAFRRMKATGLKPDRVTLLGLLFGCNHAGLVDEGYSLFRTAEMEQPGVLRPEHYACVVDLFSRAKRFDDAKRFLENLPFEPGIVFWKSLIGGCQIHWNRELAKSVAKHIHALDPKDTSSYILLSNVYSAAGSWQDVSMIRREIKEKGLKRITGCSWIEVQNQVHVFFNGDRRHPKSDDIYMMLESCLNSEEDEDCLV More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsNaBo_01g0038860	OsNaBo_01g0038860.02	Chr01	36509300	36509671	+	IsoSeq
CDS seq	atgaggcaccagcttgtcattttggaggagttttgtcacgagatatattgt
Protein seq	MRHQLVILEEFCHEIYC

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	1.088424	25.327080	19.153482

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_01g0839400	RBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os01g62220	RBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| RAP-db	Os01g0839400	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_01g0039690	RBH	0.0	0.0	0.0
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_01g0039160	RBH	0.0	0.0	0.657282
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_01g0039580	RBH	0.0	0.0	0.0
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_01g0039040	RBH	0.0	0.0	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_01g0038620	RBH	0.0	0.0	0.0
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_01G0595600	RBH	0.1911865	0.2059415	0.182068
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_01g0038300	RBH	0.0	0.0	0.0
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_01G0592700	RBH	0.2610915	0.1652275	1.778708
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_01g0038640	RBH	0.060426	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_01g0038600	RBH	0.078415	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_01g0038820	RBH	0.0	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_01g0038840	RBH	0.134446	0.087064	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_01g0038660	RBH	0.0	0.0	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_01G039170	RBH	0.0	0.0	0.258820
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_05g0019350	RBH	0.0	1.269859	0.756424

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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