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
LOC_Os07g47990		OGI:07078280 \| 16/16			Nipponbare \| IRGSP 1.0 \| MSU			Chr07:28660188-28661910		Homologues MicroCollinearity RGI-JBrowse RGAP Ricevarmap2
Gene Symbol		prx109, POX-2
DNA seq		AGGCCATTGCATACACACACAGAGTTGTTTGCATTGTAGATTGACAATGGCCTCTTGTCTGTCAGTCCTGTTGCTCTTGTGTCTAGCACTTGCAGGTTCAGTCTCCGGGCAACAACTGTCGGCTACATTCTATTCGAGGTCGTGCCCGAGAGCTCTGGCCATCATCAGGGCCGGCGTGAGAGCTGCGGTGGCGCAGGAGCCTCGCATGGGGGCGTCACTGCTCAGGCTTCACTTCCATGACTGCTTTGTCCAAGCAAGTCGTGCATTTCCACACTACTTGACTTACATTTTTATATCCATCAGTCAATTACATTGTGGTCGCAGCCTTTGCAGTTTCAGTTCTTTACACTCTTTCAGTCTCTCTTCCAGTTTAATGTGCTGCGTCAGAACAGAATGGACTCGTAGCACTGTGTTGACGTTGGATTAGAGAGACTATGGCCACCGAATTTGCTCTCAAGTCATACTAGTTCCTACTACTACTCTGAATTAACCTGAAAAAATTAACTCAACGTGCTAATTGTGTGTTGTGCATCGTGGGTGACATGGATCAGGGGTGCGACGCGTCCGTACTGCTGAACGACACGGCCAACTTCACCGGCGAGCAGGGGGCGAACCCCAACGTCGGATCCATCAGAGGATTCAACGTCGTCGACAACATCAAGGCGCAGGTCGAGGCCGCGTGCAAGCAGACCGTCTCCTGCGCCGACATCCTCGCCGTCGCCGCCCGCGACTCCGTCGTCGCCGTAAGATCATGCCCATCCTTGAGCGCGCAGCTATACGTACTATACGGCGAGCGGCGAACTGAACTTGTGTGTGTGCAGTTGGGTGGGCCGTCATGGAGGGTTCTTCTCGGGAGGCGTGACTCGACGACGGCGAGCTTGGCGCTGGCGAACAGCGACCTGCCACCTCCGTCCTTCGACGTCGCCAACCTCACCGCCTCGTTCGCCGCCAAGGGGCTGAGCCAAGCCGACATGGTGGCGCTCTCCGGCGCGCACACGGTCGGGCAGGCGCAGTGCCAAAACTTCCGCGACAGGCTCTACAACGAGACCAACATCGACGCCGCCTTCGCGGCGGCGCTCAAGGCCAGCTGCCCGCGGCCGACGGGCAGCGGCGACGGCAACCTGGCGCCGCTGGACACGACGACGCCCACCGCGTTCGACAACGCCTACTACACCAACCTGCTGTCGAACAAGGGGCTCCTGCACTCCGACCAGGTGCTCTTCAACGGCGGCGCCGTCGACGGCCAGGTCCGGTCGTACGCGTCCGGGCCGTCGAGGTTCAGAAGGGACTTCGCGGCGGCCATGGTGAAGATGGGGAACATCGCCCCGTTGACGGGAACGCAGGGACAAATCAGGCTCGTCTGCTCCAAGGTGAATTAATTAGCGGTGATCATCAACGAAAATTCTGAGTGCATGAGGGGACAATAATAAGGCTATATATGCCACTGAAATCGATATTTGTGCTTTGCACTGATCAGTGATCATGTTCACGCTTTCTTGGATCAAATTGTGTCCGAGAAAGTGGCGTGTTTGCAAGAATTTGATCGTGTACACTGAATTCTGAAGAGCCCTCATGCAAATGCCCGCGAGATTAACTCCCTTGCCTAAATATGTCCTTGTGCTCGGTTACTTCTTTGCAAAACGCTGCATGGTTGGAATATTTCACTGAGCTCCCCATATATTGTACATATTGCTTAAAACGTTATTATAAAAAAAGAAGTGCT More
CDS seq		ATGGCCTCTTGTCTGTCAGTCCTGTTGCTCTTGTGTCTAGCACTTGCAGGTTCAGTCTCCGGGCAACAACTGTCGGCTACATTCTATTCGAGGTCGTGCCCGAGAGCTCTGGCCATCATCAGGGCCGGCGTGAGAGCTGCGGTGGCGCAGGAGCCTCGCATGGGGGCGTCACTGCTCAGGCTTCACTTCCATGACTGCTTTGTCCAAGGGTGCGACGCGTCCGTACTGCTGAACGACACGGCCAACTTCACCGGCGAGCAGGGGGCGAACCCCAACGTCGGATCCATCAGAGGATTCAACGTCGTCGACAACATCAAGGCGCAGGTCGAGGCCGCGTGCAAGCAGACCGTCTCCTGCGCCGACATCCTCGCCGTCGCCGCCCGCGACTCCGTCGTCGCCTTGGGTGGGCCGTCATGGAGGGTTCTTCTCGGGAGGCGTGACTCGACGACGGCGAGCTTGGCGCTGGCGAACAGCGACCTGCCACCTCCGTCCTTCGACGTCGCCAACCTCACCGCCTCGTTCGCCGCCAAGGGGCTGAGCCAAGCCGACATGGTGGCGCTCTCCGGCGCGCACACGGTCGGGCAGGCGCAGTGCCAAAACTTCCGCGACAGGCTCTACAACGAGACCAACATCGACGCCGCCTTCGCGGCGGCGCTCAAGGCCAGCTGCCCGCGGCCGACGGGCAGCGGCGACGGCAACCTGGCGCCGCTGGACACGACGACGCCCACCGCGTTCGACAACGCCTACTACACCAACCTGCTGTCGAACAAGGGGCTCCTGCACTCCGACCAGGTGCTCTTCAACGGCGGCGCCGTCGACGGCCAGGTCCGGTCGTACGCGTCCGGGCCGTCGAGGTTCAGAAGGGACTTCGCGGCGGCCATGGTGAAGATGGGGAACATCGCCCCGTTGACGGGAACGCAGGGACAAATCAGGCTCGTCTGCTCCAAGGTGAATTAA More
Protein seq		MASCLSVLLLLCLALAGSVSGQQLSATFYSRSCPRALAIIRAGVRAAVAQEPRMGASLLRLHFHDCFVQGCDASVLLNDTANFTGEQGANPNVGSIRGFNVVDNIKAQVEAACKQTVSCADILAVAARDSVVALGGPSWRVLLGRRDSTTASLALANSDLPPPSFDVANLTASFAAKGLSQADMVALSGAHTVGQAQCQNFRDRLYNETNIDAAFAAALKASCPRPTGSGDGNLAPLDTTTPTAFDNAYYTNLLSNKGLLHSDQVLFNGGAVDGQVRSYASGPSRFRRDFAAAMVKMGNIAPLTGTQGQIRLVCSKVN
Function		Peroxidase 70 [UniProtKB/Swiss-Prot:A5H452]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
LOC_Os07g47990	LOC_Os07g47990.1	Chr07	28660188	28661910	+	MSU_osa1r7
CDS seq	ATGGCCTCTTGTCTGTCAGTCCTGTTGCTCTTGTGTCTAGCACTTGCAGGTTCAGTCTCCGGGCAACAACTGTCGGCTACATTCTATTCGAGGTCGTGCCCGAGAGCTCTGGCCATCATCAGGGCCGGCGTGAGAGCTGCGGTGGCGCAGGAGCCTCGCATGGGGGCGTCACTGCTCAGGCTTCACTTCCATGACTGCTTTGTCCAAGGGTGCGACGCGTCCGTACTGCTGAACGACACGGCCAACTTCACCGGCGAGCAGGGGGCGAACCCCAACGTCGGATCCATCAGAGGATTCAACGTCGTCGACAACATCAAGGCGCAGGTCGAGGCCGCGTGCAAGCAGACCGTCTCCTGCGCCGACATCCTCGCCGTCGCCGCCCGCGACTCCGTCGTCGCCTTGGGTGGGCCGTCATGGAGGGTTCTTCTCGGGAGGCGTGACTCGACGACGGCGAGCTTGGCGCTGGCGAACAGCGACCTGCCACCTCCGTCCTTCGACGTCGCCAACCTCACCGCCTCGTTCGCCGCCAAGGGGCTGAGCCAAGCCGACATGGTGGCGCTCTCCGGCGCGCACACGGTCGGGCAGGCGCAGTGCCAAAACTTCCGCGACAGGCTCTACAACGAGACCAACATCGACGCCGCCTTCGCGGCGGCGCTCAAGGCCAGCTGCCCGCGGCCGACGGGCAGCGGCGACGGCAACCTGGCGCCGCTGGACACGACGACGCCCACCGCGTTCGACAACGCCTACTACACCAACCTGCTGTCGAACAAGGGGCTCCTGCACTCCGACCAGGTGCTCTTCAACGGCGGCGCCGTCGACGGCCAGGTCCGGTCGTACGCGTCCGGGCCGTCGAGGTTCAGAAGGGACTTCGCGGCGGCCATGGTGAAGATGGGGAACATCGCCCCGTTGACGGGAACGCAGGGACAAATCAGGCTCGTCTGCTCCAAGGTGAATTAA More
Protein seq	MASCLSVLLLLCLALAGSVSGQQLSATFYSRSCPRALAIIRAGVRAAVAQEPRMGASLLRLHFHDCFVQGCDASVLLNDTANFTGEQGANPNVGSIRGFNVVDNIKAQVEAACKQTVSCADILAVAARDSVVALGGPSWRVLLGRRDSTTASLALANSDLPPPSFDVANLTASFAAKGLSQADMVALSGAHTVGQAQCQNFRDRLYNETNIDAAFAAALKASCPRPTGSGDGNLAPLDTTTPTAFDNAYYTNLLSNKGLLHSDQVLFNGGAVDGQVRSYASGPSRFRRDFAAAMVKMGNIAPLTGTQGQIRLVCSKVN More

Gene	Transcript	Chromosome	Start	End	Strand	Source
LOC_Os07g47990	LOC_Os07g47990.2	Chr07	28660188	28661910	+	MSU_osa1r7
CDS seq	ATGGATCAGGGGTGCGACGCGTCCGTACTGCTGAACGACACGGCCAACTTCACCGGCGAGCAGGGGGCGAACCCCAACGTCGGATCCATCAGAGGATTCAACGTCGTCGACAACATCAAGGCGCAGGTCGAGGCCGCGTGCAAGCAGACCGTCTCCTGCGCCGACATCCTCGCCGTCGCCGCCCGCGACTCCGTCGTCGCCTTGGGTGGGCCGTCATGGAGGGTTCTTCTCGGGAGGCGTGACTCGACGACGGCGAGCTTGGCGCTGGCGAACAGCGACCTGCCACCTCCGTCCTTCGACGTCGCCAACCTCACCGCCTCGTTCGCCGCCAAGGGGCTGAGCCAAGCCGACATGGTGGCGCTCTCCGGCGCGCACACGGTCGGGCAGGCGCAGTGCCAAAACTTCCGCGACAGGCTCTACAACGAGACCAACATCGACGCCGCCTTCGCGGCGGCGCTCAAGGCCAGCTGCCCGCGGCCGACGGGCAGCGGCGACGGCAACCTGGCGCCGCTGGACACGACGACGCCCACCGCGTTCGACAACGCCTACTACACCAACCTGCTGTCGAACAAGGGGCTCCTGCACTCCGACCAGGTGCTCTTCAACGGCGGCGCCGTCGACGGCCAGGTCCGGTCGTACGCGTCCGGGCCGTCGAGGTTCAGAAGGGACTTCGCGGCGGCCATGGTGAAGATGGGGAACATCGCCCCGTTGACGGGAACGCAGGGACAAATCAGGCTCGTCTGCTCCAAGGTGAATTAA More
Protein seq	MDQGCDASVLLNDTANFTGEQGANPNVGSIRGFNVVDNIKAQVEAACKQTVSCADILAVAARDSVVALGGPSWRVLLGRRDSTTASLALANSDLPPPSFDVANLTASFAAKGLSQADMVALSGAHTVGQAQCQNFRDRLYNETNIDAAFAAALKASCPRPTGSGDGNLAPLDTTTPTAFDNAYYTNLLSNKGLLHSDQVLFNGGAVDGQVRSYASGPSRFRRDFAAAMVKMGNIAPLTGTQGQIRLVCSKVN More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.437273	0.000000	0.435053

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_07g0676900	RBH	0.705209	0.000000	1.845380
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os03g22010	RBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| RAP-db	Os07g0676900	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_07g0027640	RBH	2.869101	405.604462	1.475809
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_07g0027650	SBH	0.000000	18.986893	0.229096
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_07g0027470	RBH	1.305326	735.757629	6.387176
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_07g0027240	RBH	1.349782	12.706379	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_07g0027540	RBH	2.323719	225.331573	1.255002
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_07G0466900	RBH	4.4859615	45.2625655	0.0957705
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_07g0028030	RBH	0.467455	21.708141	0.000000
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_07G0481000	SBH	2.2265265	0.7525525	0.3815175
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_07g0027330	SBH	0.221365	0.326599	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_07g0027760	RBH	0.637116	90.985054	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_07g0027480	RBH	0.0	428.885162	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_07g0027810	RBH	0.0	0.000000	0.000000
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_07g0027350	RBH	0.837192	223.136719	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_07G027430	RBH	0.902221	51.911198	1.349761
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_07g0027180	RBH	0.654701	156.280701	2.542739

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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