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_07g0001760		OGI:07004540 \| 16/16			NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)			Chr07:1422989-1428814		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		PR1A, OsPR1a, OsPR-1a, PR1a, OsPR1#074, OsPR1-74, PR-1a, OsSCP, SCP, OsPR1, OsPR1b, OsPR1, OsPR1a, PR1a, PR1
DNA seq		aatcacacaaccatactagctagtgatctctcgatctccatcatctcttcgtctaccaacaaagttataatatcaaattaaggtgtatatatatatatagtagctagcttcaattaatggcgagttcgtcgagcaggttatcctgctgcttgctggtgctcgcggcggcggccatggcggcgacggcgcagaactcggcgcaggacttcgtggacccgcacaacgcggcgagggccgacgtcggggtggggccggtgagctgggacgacacggtggcggcgtacgcggagagctacgcggcgcagcggcagggcgactgcaagctggagcactcggactccggcgggaagtacggcgagaacatcttctggggctccgccggcggcgactggacggcggcgagcgccgtgtcggcgtgggtgtcggagaagcagtggtacgaccacggcagcaacagctgctcggcgccggaggggagctcgtgcgggcactacacgcaggtggtgtggcgcgactcgacggcgatcggctgcgcccgcgtcgtctgcgacggcgacctcggcgtcttcatcacctgcaactactcgccgccgggcaacttcgtcggccaatctccctactgattaattaattaattatattatcacactcactaattaatcatatcgtatgctatgcaacgtgtttatgcatgtatggacatgtagtgtcatatggtatatcgtatatgtgtacgtataatatacgtacgtatgctggtgagaataaatccgatgaataaataaataaagctgtactgtcagccgtatttgcttagtgtatatacggtgtatgcatttacactttagctgtccttcgtggttacatgcatggtctgatggtcatgtacatatatagctggtttttgctggttaattaatttgtccttaattttgagtttatggggtttgtacgtactggttaatttatcaagccccgaatatggagattactccctctgtttctaaatatttggcgccgttgaTtttttttaaatatgtttgaccgttcatcttattcaaaaaattaaaataattattaattattttcctatcatttaatttattatcaaatatacttatatgtatacatatagttttacatatttcacaaatttttttaaataagatgaacggttaaacatttactaaaaagtcaacggtatcaaataattagaaacagaaggagtactatattagacatagtcaacattaattgtggacgctgagagagaaatatatatttggctcaaagaaaattttgtggaggaatacacatgcgggtcgatgttgcacgtatcgatagttccaagctgaaaacaattattgccagggtaatttactaacacatataaaactcagttaaagttagaaaagtttgatttaggacaaattaagctaaaataacatacaatggaacagagttagtactagtatttattcagcaaacggttaatgttaccgttccgacctacactctcatcctctttaagtaatttacgatgttaaaacatcaataattcgaagaaattatggttagacacacttaacctatctaaactctctgcgccaaaaggtaaaaggtgtgcatggcggagagagataacacgtgtaaattttggaataggattggtggaaattatttaattagtttcattaattttattagtactatgagattgttaggaccttttatctcacattgaatcaaaatcgcaacaatatctagtacagctcaaaaggtatttggaggaattgtcgaagtggaagctaagatacatacttctagaaagttccatgtgaagaagcagagccgacgaggacatagagcatatatagtaaaacgatgatttttaaaattcctgatcggtgggaagttatacttcgaggtattaatttctaatgtaaattttgatacacttaagtattttagttatctaaaaatatcaaaatttaaatcataaaatttagtagctctcaagtatcataaaatttcttcagtaaattaaagaagacgaagcatcaaggacgaagctatcatttttccaatgtgtcgttcaataatcctgcaagtgcagcagttgctgctttttgcaatgttgtcttttgggcttgcttaattgggcccagacttggagagtaattaacccagctagccacggtccagcccaatcgagtttccgatagagatgccttttgttaatttactggtgacgatcatttaagaaagaatattacagccccaacggcaatatttgcaaacaaaaataatttttaataaaacttttatatatgtgttattagtgatccaaaagcaaataaactacgataaaaaaaccttaaaatcaacttcaaatttaaagttgaaattttgaaattttagctgataagcgtaagtataagcgaaaagataagaccgttagagaacatctggtcttcgcaactatttggcatagttgaaaaacataaaatgagctaaatactatccttacagtatctgtatgtatatagagtaattttacagttattaagtaggtatcataaagtaccacattttatattataaatttgatatatcttgatagttataggtattgtatcaaattttgcactaaatttttaatatatcatggtacctcctgaataacgtaccgaataacgtaccgtaaaattgctcatctcagctcatgtatgtatgtacgtacgtacttacgtcatgcagagactgatcactaattaagtcgtacgtctttgggaaattacccggcatgatcgatggatcaatcatcaaggtgacttcatgtaatggtagtagtcacatctcggccggtcagcgtcgcgtagaatttatagatcaaaactacaccaaattgacaagtgtaacctcaaagattcgatcgcaacacacataagacaaagattgcttatctgtgaacgatgaattaattgactagcccatcaattatgttatcactacctgctagcttcggcttaattccacaacatcgagccccctaggttactctaataagttaaattttaaattttcaagttaattttaagatattttcaacgtaattttttttatattagtttttagtcgtcaaaaacatatataaaaattttacctataaattattaTttttatttctaataagccaaaataatttattagggaatatgagcaaccgatgagaccgattgtcaaacggtttagctatagatactacttcctctatttcacgaaatctatccatttttgctagaataattctccaatatgtcaattcacataaatgggtatacatattaatcatcgatatcatgttagttggtctaaaataaagagatcaattagagttgtatcagagcccaaacatattataaaaacgtggatttatatacttgttgttgtgactaatatattggcatactagattaggtttttctccccatacttcatatgatgaggatatcactagttcggatatagccatggctatattaatcaagcaaaggtgcatgttttttatgtgagatttacgtgttatatatttgaacaaacattactgtactataagttttatgtgttctcatttgtaaaggtacttgcttggatgaagaaaaggggagcgggcatatggagtgttcggatgatcaatgaacttgattgggtaccaaccaatatcattccccaagtatactccaatattactacgtcacttttggtccatacaaggcaagatatgaaattttacacgttttggttttgatacggacctcctgacaacatcaacttccaacggacttagccgttgatctagaaggaatccaggggctcttgagtacttgctgaaaagcttattgagtttacagatggttttggtcacacatcaaaattcctcctcagctgttgggcatatgcaaaacaagccacgtgcattatccagtccgagtctgatttgagccttgaactttgcaatttgtaattgtgtcgtgggctaaactcaaaggcctggcgccctagggcaaccctaggacgtctctaatcatatttattcagtttacagtcgggttttggttagattatttctgccatcgtagtttcaccactagttcggtttgtagaacccccaacctcgagtgcttaattattcgtctgcaatagagttgttatctaccttgttcttgcttgtgttattcgattcgtatgtagggattagccttctcagtgaggtcaatcgggtagcacacggttgataactagacaagacgtggtgctgtaattgcaaggttcggatcgtgttgatcagtaaccggattgtgtgtgtcatgttttcgccaaatcgagagttacctttacctatcggaagatcaggacctagttactcatcagttggtatcagagtgtcagattgcccgttaggtaatttatctacccataactagaaaattgccacacaaaaaattaaattgagagttatcaatacctttcggaagatcaggacctagttcctcatcagttggtatcagaggagaacaccggtctccgaccaatagaagtatggctattatccatcccgaaaaccttgaacctatataatatccatgtctccttttctcttgcactataatttcatttgcattctcatatcagccgatccatacattatcgaaatacaacctgtaagtagggatcctgaggtcggggtataaccatcggcatattccgattgggagatgtagatgcaggttttgcagatgaatgtgttagacttgatttcgtagaggcgtcgtatctagatctttttctcattattttccaatgcatgcatcgatcaacaacttgcatggaggtgacgatcgaaacaaaacaacttgcagtgaggcgatagtggtagttgtagtttggtcggtcattcgatctcgctatagagctacgacgacgtattcaaccatatataacacatggcagttttattgatcacctttagttaatttttgtgagcatgtacgagtagccacgtaaagtatcgatatgaagtaaattaaacctcaatttccgaaatgtcacgttcgcgtgcatggaattatttgctcctcttaatttgtgaataaaataatttgacgagaagcgtacgtacattgcaaagtcatcgaactttgcactataaatacccagcttatacaaccatatatctcacaccagcaacaagctaatcatacatacatacaaatcaattccctttttaattagcaattagagagcttaattaattttgcatcgaaaatggcaacctccagcttgctagtagctgcagtgctcgcggcggcggccatggcggcgacggcgcagaactcggcgcaggactacgtggacgcgcacaacgcggcgaggtccgacgtcggggtcgggccggtgagctgggacgacacggtggcggcgtacgcggagagctacgcggcgcagcggcagggcgactgcgcgctagagcactcggactccggcgggaagtacggcgagaacatcttctggggctccgccggcggcgactggacggcggcgagcgccgtgtcgtcgtgggtggcggagaagcagtggtacgaccacgacagcaacagctgctcggcgccggcgaatgcttcgtgcctccactacacgcaggtggtgtggagcaactcgacggcgatcggctgcgcccgcgtcgtctgcgacagcaacctcggcgtcttcatcacctgcaactactcgccgccgggcaacgtcgacggcgaatctccctactag More
CDS seq		atggcgagttcgtcgagcaggttatcctgctgcttgctggtgctcgcggcggcggccatggcggcgacggcgcagaactcggcgcaggacttcgtggacccgcacaacgcggcgagggccgacgtcggggtggggccggtgagctgggacgacacggtggcggcgtacgcggagagctacgcggcgcagcggcagggcgactgcaagctggagcactcggactccggcgggaagtacggcgagaacatcttctggggctccgccggcggcgactggacggcggcgagcgccgtgtcggcgtgggtgtcggagaagcagtgcttgctagtagctgcagtgctcgcggcggcggccatggcggcgacggcgcagaactcggcgcaggactacgtggacgcgcacaacgcggcgaggtccgacgtcggggtcgggccggtgagctgggacgacacggtggcggcgtacgcggagagctacgcggcgcagcggcagggcgactgcgcgctagagcactcggactccggcgggaagtacggcgagaacatcttctggggctccgccggcggcgactggacggcggcgagcgccgtgtcgtcgtgggtggcggagaagcagtggtacgaccacgacagcaacagctgctcggcgccggcgaatgcttcgtgcctccactacacgcaggtggtgtggagcaactcgacggcgatcggctgcgcccgcgtcgtctgcgacagcaacctcggcgtcttcatcacctgcaactactcgccgccgggcaacgtcgacggcgaatctccctactag More
Protein seq		MASSSSRLSCCLLVLAAAAMAATAQNSAQDFVDPHNAARADVGVGPVSWDDTVAAYAESYAAQRQGDCKLEHSDSGGKYGENIFWGSAGGDWTAASAVSAWVSEKQCLLVAAVLAAAAMAATAQNSAQDYVDAHNAARSDVGVGPVSWDDTVAAYAESYAAQRQGDCALEHSDSGGKYGENIFWGSAGGDWTAASAVSSWVAEKQWYDHDSNSCSAPANASCLHYTQVVWSNSTAIGCARVVCDSNLGVFITCNYSPPGNVDGESPY
Function		Pathogenesis-related protein PRMS [UniProtKB/Swiss-Prot:Q00008]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsNaBo_07g0001760	OsNaBo_07g0001760.01	Chr07	1423105	1428814	+	NAM
CDS seq	atggcgagttcgtcgagcaggttatcctgctgcttgctggtgctcgcggcggcggccatggcggcgacggcgcagaactcggcgcaggacttcgtggacccgcacaacgcggcgagggccgacgtcggggtggggccggtgagctgggacgacacggtggcggcgtacgcggagagctacgcggcgcagcggcagggcgactgcaagctggagcactcggactccggcgggaagtacggcgagaacatcttctggggctccgccggcggcgactggacggcggcgagcgccgtgtcggcgtgggtgtcggagaagcagtgcttgctagtagctgcagtgctcgcggcggcggccatggcggcgacggcgcagaactcggcgcaggactacgtggacgcgcacaacgcggcgaggtccgacgtcggggtcgggccggtgagctgggacgacacggtggcggcgtacgcggagagctacgcggcgcagcggcagggcgactgcgcgctagagcactcggactccggcgggaagtacggcgagaacatcttctggggctccgccggcggcgactggacggcggcgagcgccgtgtcgtcgtgggtggcggagaagcagtggtacgaccacgacagcaacagctgctcggcgccggcgaatgcttcgtgcctccactacacgcaggtggtgtggagcaactcgacggcgatcggctgcgcccgcgtcgtctgcgacagcaacctcggcgtcttcatcacctgcaactactcgccgccgggcaacgtcgacggcgaatctccctactag More
Protein seq	MASSSSRLSCCLLVLAAAAMAATAQNSAQDFVDPHNAARADVGVGPVSWDDTVAAYAESYAAQRQGDCKLEHSDSGGKYGENIFWGSAGGDWTAASAVSAWVSEKQCLLVAAVLAAAAMAATAQNSAQDYVDAHNAARSDVGVGPVSWDDTVAAYAESYAAQRQGDCALEHSDSGGKYGENIFWGSAGGDWTAASAVSSWVAEKQWYDHDSNSCSAPANASCLHYTQVVWSNSTAIGCARVVCDSNLGVFITCNYSPPGNVDGESPY More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsNaBo_07g0001760	OsNaBo_07g0001760.02	Chr07	1422989	1423808	+	IsoSeq
CDS seq	atgtatggacatgtagtgtcatatggtatatcgtatatgtgtacgtataatatacgtacgtatgctggtgagaataaatccgat
Protein seq	MYGHVVSYGISYMCTYNIRTYAGENKSD

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.0	45.302692	5.740110

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_07g0129200	RBH	20.475433	15.962473	20.742544
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os07g03730	RBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| RAP-db	Os07g0129200	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_07g0001820	RBH	0.0	0.0	0.0
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_07g0001810	RBH	0.0	42.178741	4.167984
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_07g0001700	RBH	0.0	0.000000	0.0
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_07g0001690	RBH	0.0	1.088405	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_07g0001760	RBH	0.0	19.248026	0.0
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_07G0026200	RBH	0.708206	0.818399	0.0582185
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_07g0001820	SBH	0.0	0.467017	0.0
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_07G0022700	RBH	0.265995	8.0111045	0.276095
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_07g0001750	RBH	0.000000	0.118062	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_07g0001820	RBH	0.0	22.701403	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_07g0001800	RBH	0.0	39.938324	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_07g0001870	RBH	0.0	0.0	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_07g0001790	RBH	0.0	1.697424	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_07G001830	SBH	0.711452	0.000000	0.191643
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_07g0001740	RBH	0.0	10.390947	0.0

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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