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
OsMH63_04G0158300		OGI:04034710 \| 1/16			Minghui 63 \| MH63RS3 \| HZAU			Chr04:10500484-10504841		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		DGS1, OsRPC53, RPC53, OsRPC4, RPC4, OsDGS1
DNA seq		CCCTGAATAGCACTATACAAAAACATACACCAAAATCGCCAGCTATTATGCAGCAGTTTACAGCTCACAGAAAAAAAAAAGTGTTCGCATCACATTGATATACCTAAGAAAAGTTCATGCATTCAGTATGAACAGTTGTCAAAGCAGTAGTGAAGATGGAAAAAAAAGGGGACCATGCTTCATGGGTTATGTTTTCTGTGATCCAATCATTGCAAGGACAAACAATGTAGGTATCGATGACAAAATTTGACTGTTATAGATGAGAAGAGGACACAAAATCGCTCAGCAGTTCACTTTGACATTTTGTGACTTGCTGGCTAACTGATTCTCCACCGTTTGATATATTCCCACGAAAACTCAAAATTGCCATTTTGATAAAACTGGCGTTTTTTGGACTAAAGAAGCCCAAGGGCAAGTAAAGGAAACTCATGGATGAGGAGCAAACAAAATTCCCATGAAATGGTTCATATGGCCATGACTTTTGCACATAAGGCATGGGCTTACGCTTCCATCTTGTCGAAAGAATCCAGCAGATGCTCGATGTCCGGGGTTACAATCGCGCGCTTGCTGATCTCTCCCAAGGTGCAGCAGTGCTTTTCTCTGGCGTTAATTGCCGCAACCTCCTGGACAAACATGCAATTTGAACCCGGAGAGACCTGCACGGTTGTTTCAGTTTTGATATAGCATGGGGCCATGGAAAACATAAAGATAGAATGCTGGGGCAGAGAGTTTTCATACTCACATCAAAGAGTGAATCTCCGATCTTCATCTTCACTTTACCGCTCCTATATACAAGTATCTTCCCCATGAAACCTTCTGGAAGGTCTTTGAGCTTAGAGCCAAGGACTTTTGGTGGCCTTGTTCCTGCATGCATCTCCTTAGAGCTTGTGCTTGTAGGTTCAGCATCCACCCCATCGCCTTTATCTGTCTCTGCGACTGAGTCTGGCTGCTTTGGTAATGGAAGAGATGCAGGCATCTGGAAGAAAAGCAACTGTGCTTTGTCTGACCGATGCTGTCAAATGTCAATACATCAATCAGCAAAACGGACTTGCCTTCGCCACTTTAACAGGTCTAAAAGTTAAAAGGCTAGGATGCATATGCTACACAGAGTACAATTCTATTTGCTTTTAAGCTACACTCCAGTTACCAGAAATGAAACATTGACCTTAAACACCAGGACACACCATTAGTCCAAGTTCTTCTGCTGTGGTTAATTCACCATCTTGGGCTCCGGTGGCAGAAGACTCTCCAAACTCCTCTTCATTAAGAATTTCTGGATTATGAACAGAAGAGACATAAGGTTTGGTTGAAGAAAATGATTCTACCTAGTCTGGAAGGACCAACAAGATACCAGGATCTCCAGAATACGGTCTCCTCAGTGGGAGAGTAACAGGATAGTCACTGTGGGTATAGTCCTGTGAGGAATCAAGTAAATAAGGAGTGGAAAGAAGGAATCCCACATAAGTGAACTTGATATCTTTATTTACTCACCCATGGTTCAACATATTCTTTTGGTAATTTTGAAGCTGATCCATCTGAATATGCATGTAAACAAAGCTTGTCAATATCCAAACAAAGTAATCCATACAGCTGAATAAGTAATAAAGATTATGTGTCCTTACAAAAGACAAGCAACGCTTGCAATACTATCCAGTTTGATGATATATACAGTAAAGTCAATATACACTTGACTACCAAGTGGATGGTTCAGCTAAAGATAAAACATTGGACACACATAATATCTTAATACCTGCTGAACTTTGCATGGGAAATGATCTTGCATACGACGAGTTCCCCTGTCCAAATGCAACTTGAGTACGCATTTCTACGATGACAACAAAGCACGACATCAGTAGCAAGTAAGCATGTAAATCAAGAGAGAAGGTCAACATCATCAGAAATACTCTGTACATTAATGGGACCTTTTACTACACAAAATAATGATTAGGCATGGAATGAATCAGTGAAATGCTATTTTGATGCATCCTTTGCGCATAACATTTCTCAGGGCATTCCAATGCATTAAGCATTCAATTATACTGCTTAGAATAGGATGAAAATCAAATCATACTCTTCTAACAGACCAGTGTTTTGCTTGCAACAAATTTTCATCCTCTGATACAACCGAACCACACACTTGTACTTGACCAACTAAGAAACCACTTGCAATTGTGCAGCAGATATAGTTGAAGGGTCGGTGTACAAGTTCTTTTCTTTTGTTTTTGAAAAAAAAAGGATATGCATTGCCTAGTAGATTAAGATTGGTCATACAAGTAAAAACACTCATGTGGCCAGCTGAATCAGGAAAAATCCATTGAGCAATGAAAAATCAGTCATGCATGCTCAATTCACAGCCTTCACTATTCTTAACTACATAGATTGCAGTTGCAGGTTGAAAATTTAAAACCTCTGAGGACATGCATATTTGGCAAGACAAGTTAACTGATAAACCGATAACAACAGGGGGAAATAGACACTGGTCATGCTCGAATAATACAAGATTACACATTTACCAGATGATCATGAATAAATTGGAAAGGACGGAAAGGAACAGCAATTAACTAGTCTTACCCTTTTTCTCAGTCTTAAATTTTCTCACAAAGGGATCTGTGCTCTGCAAATCGGCAAAGTAATTCAAGATTTCACAAACACCAAACAAGACTTAATTAACAAGAAACTTTTTATGTACAGTATTAAATGACAAAAAAGATGAGAAATAAACACCTGCGATGTCTTAAGCTTCATCAACAGCTCTTTATCTACGGTTTCATCCTTGCTTTCCTCAGCCGGCTCCCTGTTGAATTACACAAACTCTCTCTCTCATTCGACAGCACATAACCTATTGTAATAGATAATCTCCCATGAAACATATCAGAGCATTATGGAAGAAAATATGGAGCGAATCACATACGTTTTCGGGACGATCTTTGGAGCTTTCTTAGGACGAACCTTGGGTGCAAATTTAAGCCCTCCCTTGCGTAGCACAAAAGGAAAAAAATATATTAAAGATTACGGTAAGAACCAATTAGGCCACACCAATCAGGAAATATAAGGGAGGATTTTTAACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATCCTGCGGAAAAAAAAACTCGCTTAGCTTTACATTACATTACACGATATGATGATCTCTATTGATTATTGAATGAACTTCCCCTGCAGATCGCACAGTTCATCGCAGAAACGAGATAATTGGAGGCCCAATCGGAGGGTCTAATCAGAGAGGGCCATGAAACCAATGCAGGTCCCAATGGATCCCCAAATTCGTGCCCAATGGATCCCCAAATCCGTGCCACGCCCAATAGACGATAGCGGGCCTAGGATTTTAAGGTTGGGTATTCGAAATAGGAAGAGGTAAAACAAAATTCAACCCAAAGCCTAACATTTGATATCTATAATTTCATATAGTTCTAACTAATAGTTATATAATGTATAACTGATATAAGCAGAATTGGCCATAAATTTAATGTGTTTAACATATGGAAGTACTAAACTACTGATTGACAATCGTTCAACATATCAAATATGATAAAAAAAATCTTACAACATGGTATTTAAGTGCCTTTTTTTTTCTAAAAATAGCGGGATCATTTTTCCTCTTCATGTTTCAGATTAAAAAAAATAATCAACGATTTGGTATTTCTGTGCTACTTATTGAGTTATTATTGTGATACTTTGTGAAAAATATATGCACTACAATCTAGAGATTAAGTATATATCCACGAATCCATCAACATCACGCCATTGCATTACACCATGGTTAATGCACAAAATTAGGCAGCCATTCACTACAATAAACAAAGTACAGCTCTCTCGAGTTAAAATTTGGTGTATACTTGTCCAGTCTACAAAAATTAGACAACAAATTGGGTTCAAATTTTCTCTTATATTGGACCACTTAAGCAGTTCAACAGGCAACGATCTAACAAATGTGCGATTCAATCTTCACATTCAACAAATTGGAAAGCGAGGATTGAATGGCTTACCTCTGGCAATCGACTGAATCGAATCAGAACTATTCGGCGAGGTAGCTTGCCAAGGGCGGTGGGGGCGCGCCGCGCGCGGTGAGCGGGCGCTGCAGTGCGACCAACAGGGGCACCGGGCCAACCAGCCAAGGGCAGGGGGTCACGGAGCGCGTCGGGGGAGAGGAGACCAGCAAGGAAGAACCGGCGGCGGTGGCGGCGGTGGGAGGGAAGCGCGCGGCGGCGATGGAGGCCGGGGAGAAGTAAGACAACGACGAGAAAAAGTAGAGCCTGATCGCCACAAACAAACACTAGTACTGGCAT More
CDS seq		ATGCCAGTACTAGTGTTTGTTTGTGGCGATCAGGCTCTACTTTTTCTCGTCGTTGTCTTACTTCTCCCCGGCCTCCATCGCCGCCGCGCGCTTCCCTCCCACCGCCGCCACCGCCGCCGGTTCTTCCTTGCTGGTCTCCTCTCCCCCGACGCGCTCCGTGACCCCCTGCCCTTGGCTGGTTGGCCCGGTGCCCCTGTTGGTCGCACTGCAGCGCCCGCTCACCGCGCGCGGCGCGCCCCCACCGCCCTTGGCAAGCTACCTCGCCGAATAGTTCTGATTCGATTCAGTCGATTGCCAGAGCTAAGCGAGTTTTTTTTTCCGCAGGATTTGTGCTTCTTTTCTTGTATGATGGATAGCAAGGGCAAAGTGAAGAAGGAAACGGATGGCCTCCCTCCTCGCAAGGGAGGGCTTAAATTTGCACCCAAGGTTCGTCCTAAGAAAGCTCCAAAGATCGTCCCGAAAACGGAGCCGGCTGAGGAAAGCAAGGATGAAACCGTAGATAAAGAGCTGTTGATGAAGCTTAAGACATCGCAGAGCACAGATCCCTTTGTGAGAAAATTTAAGACTGAGAAAAAGGAAATGCGTACTCAAGTTGCATTTGGACAGGGGAACTCGTCGTATGCAAGATCATTTCCCATGCAAAGTTCAGCAGATGGATCAGCTTCAAAATTACCAAAAGAATATGTTGAACCATGGGACTATACCCACAGTGACTATCCTGTTACTCTCCCACTGAGGAGACCGTATTCTGGAGATCCTGAAATTCTTAATGAAGAGGAGTTTGGAGAGTCTTCTGCCACCGGAGCCCAAGATGGTGAATTAACCACAGCAGAAGAACTTGGACTAATGCATCGGTCAGACAAAGCACAGTTGCTTTTCTTCCAGATGCCTGCATCTCTTCCATTACCAAAGCAGCCAGACTCAGTCGCAGAGACAGATAAAGGCGATGGGGTGGATGCTGAACCTACAAGCACAAGCTCTAAGGAGATGCATGCAGGAACAAGGCCACCAAAAGTCCTTGGCTCTAAGCTCAAAGACCTTCCAGAAGGTTTCATGGGGAAGATACTTGTATATAGGAGCGGTAAAGTGAAGATGAAGATCGGAGATTCACTCTTTGATGTCTCTCCGGGTTCAAATTGCATGTTTGTCCAGGAGGTTGCGGCAATTAACGCCAGAGAAAAGCACTGCTGCACCTTGGGAGAGATCAGCAAGCGCGCGATTGTAACCCCGGACATCGAGCATCTGCTGGATTCTTTCGACAAGATGGAAGCGTAA More
Protein seq		MPVLVFVCGDQALLFLVVVLLLPGLHRRRALPSHRRHRRRFFLAGLLSPDALRDPLPLAGWPGAPVGRTAAPAHRARRAPTALGKLPRRIVLIRFSRLPELSEFFFPQDLCFFSCMMDSKGKVKKETDGLPPRKGGLKFAPKVRPKKAPKIVPKTEPAEESKDETVDKELLMKLKTSQSTDPFVRKFKTEKKEMRTQVAFGQGNSSYARSFPMQSSADGSASKLPKEYVEPWDYTHSDYPVTLPLRRPYSGDPEILNEEEFGESSATGAQDGELTTAEELGLMHRSDKAQLLFFQMPASLPLPKQPDSVAETDKGDGVDAEPTSTSSKEMHAGTRPPKVLGSKLKDLPEGFMGKILVYRSGKVKMKIGDSLFDVSPGSNCMFVQEVAAINAREKHCCTLGEISKRAIVTPDIEHLLDSFDKMEA
Function		DNA-directed RNA polymerase III subunit RPC4 [UniProtKB/Swiss-Prot:Q5E9Z7]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_04G0158300	OsMH63_04T0158300-mRNA-1	Chr04	10500484	10504841	-	maker
CDS seq	ATGCCAGTACTAGTGTTTGTTTGTGGCGATCAGGCTCTACTTTTTCTCGTCGTTGTCTTACTTCTCCCCGGCCTCCATCGCCGCCGCGCGCTTCCCTCCCACCGCCGCCACCGCCGCCGGTTCTTCCTTGCTGGTCTCCTCTCCCCCGACGCGCTCCGTGACCCCCTGCCCTTGGCTGGTTGGCCCGGTGCCCCTGTTGGTCGCACTGCAGCGCCCGCTCACCGCGCGCGGCGCGCCCCCACCGCCCTTGGCAAGCTACCTCGCCGAATAGTTCTGATTCGATTCAGTCGATTGCCAGAGCTAAGCGAGTTTTTTTTTCCGCAGGATTTGTGCTTCTTTTCTTGTATGATGGATAGCAAGGGCAAAGTGAAGAAGGAAACGGATGGCCTCCCTCCTCGCAAGGGAGGGCTTAAATTTGCACCCAAGGTTCGTCCTAAGAAAGCTCCAAAGATCGTCCCGAAAACGGAGCCGGCTGAGGAAAGCAAGGATGAAACCGTAGATAAAGAGCTGTTGATGAAGCTTAAGACATCGCAGAGCACAGATCCCTTTGTGAGAAAATTTAAGACTGAGAAAAAGGAAATGCGTACTCAAGTTGCATTTGGACAGGGGAACTCGTCGTATGCAAGATCATTTCCCATGCAAAGTTCAGCAGATGGATCAGCTTCAAAATTACCAAAAGAATATGTTGAACCATGGGACTATACCCACAGTGACTATCCTGTTACTCTCCCACTGAGGAGACCGTATTCTGGAGATCCTGAAATTCTTAATGAAGAGGAGTTTGGAGAGTCTTCTGCCACCGGAGCCCAAGATGGTGAATTAACCACAGCAGAAGAACTTGGACTAATGCATCGGTCAGACAAAGCACAGTTGCTTTTCTTCCAGATGCCTGCATCTCTTCCATTACCAAAGCAGCCAGACTCAGTCGCAGAGACAGATAAAGGCGATGGGGTGGATGCTGAACCTACAAGCACAAGCTCTAAGGAGATGCATGCAGGAACAAGGCCACCAAAAGTCCTTGGCTCTAAGCTCAAAGACCTTCCAGAAGGTTTCATGGGGAAGATACTTGTATATAGGAGCGGTAAAGTGAAGATGAAGATCGGAGATTCACTCTTTGATGTCTCTCCGGGTTCAAATTGCATGTTTGTCCAGGAGGTTGCGGCAATTAACGCCAGAGAAAAGCACTGCTGCACCTTGGGAGAGATCAGCAAGCGCGCGATTGTAACCCCGGACATCGAGCATCTGCTGGATTCTTTCGACAAGATGGAAGCGTAA More
Protein seq	MPVLVFVCGDQALLFLVVVLLLPGLHRRRALPSHRRHRRRFFLAGLLSPDALRDPLPLAGWPGAPVGRTAAPAHRARRAPTALGKLPRRIVLIRFSRLPELSEFFFPQDLCFFSCMMDSKGKVKKETDGLPPRKGGLKFAPKVRPKKAPKIVPKTEPAEESKDETVDKELLMKLKTSQSTDPFVRKFKTEKKEMRTQVAFGQGNSSYARSFPMQSSADGSASKLPKEYVEPWDYTHSDYPVTLPLRRPYSGDPEILNEEEFGESSATGAQDGELTTAEELGLMHRSDKAQLLFFQMPASLPLPKQPDSVAETDKGDGVDAEPTSTSSKEMHAGTRPPKVLGSKLKDLPEGFMGKILVYRSGKVKMKIGDSLFDVSPGSNCMFVQEVAAINAREKHCCTLGEISKRAIVTPDIEHLLDSFDKMEA More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_04G0158300	OsMH63_04T0158300-mRNA-2	Chr04	10500484	10504841	-	maker
CDS seq	ATGCCAGTACTAGTGTTTGTTTGTGGCGATCAGGCTCTACTTTTTCTCGTCGTTGTCTTACTTCTCCCCGGCCTCCATCGCCGCCGCGCGCTTCCCTCCCACCGCCGCCACCGCCGCCGGTTCTTCCTTGCTGGTCTCCTCTCCCCCGACGCGCTCCGTGACCCCCTGCCCTTGGCTGGTTGGCCCGGTGCCCCTGTTGGTCGCACTGCAGCGCCCGCTCACCGCGCGCGGCGCGCCCCCACCGCCCTTGGCAAGCTACCTCGCCGAATAGTTCTGATTCGATTCAGTCGATTGCCAGAGCTAAGCGAGTTTTTTTTTCCGCAGGATTTGTGCTTCTTTTCTTGTATGATGGATAGCAAGGGCAAAGTGAAGAAGGAAACGGATGGCCTCCCTCCTCGCAAGGGAGGGCTTAAATTTGCACCCAAGGTTCGTCCTAAGAAAGCTCCAAAGATCGTCCCGAAAACGGAGCCGGCTGAGGAAAGCAAGGATGAAACCGTAGATAAAGAGCTGTTGATGAAGCTTAAGACATCGCAGAGCACAGATCCCTTTGTGAGAAAATTTAAGACTGAGAAAAAGGAAATGCGTACTCAAGTTGCATTTGGACAGGGGAACTCGTCGTATGCAAGATCATTTCCCATGCAAAGTTCAGCAGATGGATCAGCTTCAAAATTACCAAAAGAATATGTTGAACCATGGGTGAAAATTCTTAATGAAGAGGAGTTTGGAGAGTCTTCTGCCACCGGAGCCCAAGATGGTGAATTAACCACAGCAGAAGAACTTGGACTAATGCATCGGTCAGACAAAGCACAGTTGCTTTTCTTCCAGATGCCTGCATCTCTTCCATTACCAAAGCAGCCAGACTCAGTCGCAGAGACAGATAAAGGCGATGGGGTGGATGCTGAACCTACAAGCACAAGCTCTAAGGAGATGCATGCAGGAACAAGGCCACCAAAAGTCCTTGGCTCTAAGCTCAAAGACCTTCCAGAAGGTTTCATGGGGAAGATACTTGTATATAGGAGCGGTAAAGTGAAGATGAAGATCGGAGATTCACTCTTTGATGTCTCTCCGGGTTCAAATTGCATGTTTGTCCAGGAGGTTGCGGCAATTAACGCCAGAGAAAAGCACTGCTGCACCTTGGGAGAGATCAGCAAGCGCGCGATTGTAACCCCGGACATCGAGCATCTGCTGGATTCTTTCGACAAGATGGAAGCGTAA More
Protein seq	MPVLVFVCGDQALLFLVVVLLLPGLHRRRALPSHRRHRRRFFLAGLLSPDALRDPLPLAGWPGAPVGRTAAPAHRARRAPTALGKLPRRIVLIRFSRLPELSEFFFPQDLCFFSCMMDSKGKVKKETDGLPPRKGGLKFAPKVRPKKAPKIVPKTEPAEESKDETVDKELLMKLKTSQSTDPFVRKFKTEKKEMRTQVAFGQGNSSYARSFPMQSSADGSASKLPKEYVEPWVKILNEEEFGESSATGAQDGELTTAEELGLMHRSDKAQLLFFQMPASLPLPKQPDSVAETDKGDGVDAEPTSTSSKEMHAGTRPPKVLGSKLKDLPEGFMGKILVYRSGKVKMKIGDSLFDVSPGSNCMFVQEVAAINAREKHCCTLGEISKRAIVTPDIEHLLDSFDKMEA More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0	0.706202	0

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_04g0394500	SBH	2.753114	3.539967	6.915311
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os04g32350	SBH	2.381084	2.348512	1.920179
Nipponbare \| IRGSP 1.0 \| RAP-db	Os04g0394500	SBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_04g0011640	SBH	0.000000	0.000000	5.646593
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_04g0012430	SBH	0.000000	4.125924	3.994825
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_04g0012130	SBH	0.450200	8.406710	0.000000
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_04g0011780	SBH	0.000000	0.278643	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_04g0005780	SBH	0.000000	0.000000	0.000000
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_04G0160300	SBH	0	0.121007	0.1431195
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_04g0010960	SBH	0.000000	0.000000	0.000000
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_04G0166700	SBH	0	0.0037315	0
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_04g0005520	SBH	0.000000	0.000000	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_04g0005710	SBH	0.000000	0.000000	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_04g0005570	SBH	0.0	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_04g0005430	SBH	0.0	0.0	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_04g0005820	SBH	0.000000	0.000000	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_04G011140	SBH	0.000000	1.783965	0.474483
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_04g0005650	SBH	0.0	0.0	0.0

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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