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_03G0572200		OGI:03093760 \| 16/16			Minghui 63 \| MH63RS3 \| HZAU			Chr03:36704833-36709144		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		OsbHLH098, OsbHLH98, OsbHLH089, bHLH089, bHLH89
DNA seq		AAAAAAAAAATGAAGGGCTTTAGGATTTATAGCAAGAGAATTATTGATGGTTATTACTTTTCTTTCATGCTACGAATGAGCGTGACCTGCCGAAATTCCGTGGAATACATGAATCTGATGAGAATTGTATCCCGGTACAGATGTAAAAATACTGTGCTCGCAGTCTCTAAATACATGAGCTCCATGCTATGAATGAAATCGAATTTGGAGCACGAGAGTTTCGAAAAATAATCTAAAGCCGTGGTTTCTGACTGAACTCATGGTATGCTTTATTTTGGGCCACCATCCTGACTTTGTTCTGTTCATGTCACTCTTTCATAGGTGCCACCAATCTGCATGTGGAGCCATTCCGATGGTGTTGATCCCTGGGCGTATTCTCTTGGTGTTTGTGGATCAAACGTCAATCCAGGAGCCGTGTTGTATACCTGAGCACCAAACTGCAACCAAAAGACCCAAAAGAAAATAAACAATTTTAATACTAAAAACCAAATTTGGAAGTTTACATAAAGCTCCACAGAGCTACTAGTACTTAGTAAATACATAAACACATTGAACTAAACAAACAGACAAATGCCATGGTTAGATAAAGAGTACAAATCAGGAAAATGTTTCAATGATGTGTATCCTCTGCAGATATTAAATGCCTTGCCATGCCTAAACGTTTTTGAAATTCAGGAGTATAGCTTCAATAAAATGGTAATAATTTTCAGAAGGGAGCAATGGATAACGCCTTCAAAAACTAAAACATATGGTAGTAGCATATAGCTGGCTTGCCTGTAGAGTATGGGACTTGTTGAAAAAAACAACATATTAACACAGTGTTCAAAGTCAAAGATTGGAGCTAAGATAAAGTGCCAGTAGCGCATAGTATGCCACAGAATCTTTCAAATATATCTTGAGACCTTTTATTGTAATAATGATCATGCTATTTAAACTGTTAATTTTACTACTTGACTTACATCTTTGGGTGGAAATGCTTCGATTCCATTATTCACATGAGCATTAACAGCCTCAAGCTTCATGGACAAAAACTGCAGATAACAGCAAATTATAGAGCGATTAGCTGAGATATGGAGGGTAAAGAAATTTCATAAAGCGCCAATGGTGAAACAGCATACCTCAACTTGCCGTTGCAAAGCCTGGATATAATTAATTATCTCATCAAGTACTGATGCTTTCCCAATAACCTGGCCAAGCAAGCAAAAGTTTTCCAATGAAAATCAATTACAGAAACAGAACTGGGGATGTTTTAGAGGTCATGTTACAAAAATATAATATTTAAACCCCAACTTATGGGACAAAATAAGGAAAATATGTTGAGACCTTGTTGCATCCAGGGACAAGATCCTGGAGAATTTTCATCCGCTCACTTATTTTCTCACGACGTGCCTGCCAAAAATGAACAGAATTTTCAGTGGTCATATCATAGTATAAACATGAAATGGACCGTTTGCCCCCCAAAAAAAAGAAAGATCTTCAGAGGTTCGATTTGTAACCAGATTTTCCACTCCTGTAATGGGACTGTGATTGACAAGAACGGTAACAAAAACAAGTACACTAACTGACCCTTTCGGCAAGGCTATGGCTGTCAGTAGCTTGACCCCTTCTTGCCCTCACATGGATGTAGTCTTGCTTTGGTGGTTCTGGTGGTGGCGGATTTTGATCACCAGACTTGCTAGCATTTCTTGAATCAGTTTCAGCCTCTGTTCTTAAACTGCTATTATCTGATTTACTTGCCTTGAAACGCTTTGCTTCTGAATCAGTCTGCTCATAAAAATTCCACATAATCCGTGCATATCAAAACATGATCCATGCTTTTTTTTTCTCTTTAAAGGTTAAAGGGGAAAAGGCACTGTATATTGCCTTCTGACCTCAAAAGTTAAAACAACCACTCAAGTTATCAACATGATCAATAATTGGTGAATATATGAGGCAAAAATCATAGAAATGCACCAATAGAATCAAAGAACTAGAATGCCTGACAATGATGACCTCCACTAATATTAAGTGTGCATGTTCAAATTCAAATTACAGGCACCTTTGGCTACTAAATGCAAGCAAAGAAATGCTGATTGCATCTTGTATTTGAGCTCATGCAATTTCTAGGGTTATAGATCTGATGGTGCTGCAGAATGCCTCAATTATACGGTGGACCATGGAACCACTCAGGATCCTTGTCTCCAGCCAAAACATTGTGTGGACCAACAGGTTGTTGGCTCAGTAGTTAGTACTGAAGAATGGAGATAATAAATAGAATTTAATAGTCTGTCTAACAACAGCTTTTAACCAGCGTGAACAGATAGCAGCAACTGTTGCAATTTAGTCAAAGACCCAAAAGCTGTTGCATTGCACCAGAGTTACTAAGCACTTGGCATTCGACAAGGATAGTTAAGACGGGTGTTGGCCGATAGCTTGATCAAATATAAACAGCTCCAAGAAGATTCCAGCAGTAACATAATGTCGAGTGTTGAGTGTTGGCTACAGTTATGTATAGAAGAAAAATATCAAGCTCTATGCCATATTCACATCGATGGGTAGTTCAAAAAAAACTAGTTCCATTTCTTCTAGAGGTAAAAATTTTTAGATTTTTGTGGGAAAAATAAACTAGTATAGTAGTATGTTAGCTTGAGAGTTGAGTTCATATGCTACCAACACTCCAGTGAATCAAACATAACAAGCATTACCAAGCAACAAAAATCAAAATGTCATAATAGGAAATTCACTATAGATGCAAACTACAGCACTACTGGGTGCTAACAACTAGTACTATAATATGAATGTCTTATAATGTTCTTTCTTTTGACAAAAGTTGAGAACATTACAAAGGTGCAAACACTATAGAAGTAGTCCTTGTCAAAAACAGCACCCAGAATCAACTTGGATATAGTGAAACCATTATGTTAACAATAGAAAACCGACAATCTAATACTCCAGGTTTTATAAATACTAAAGGTCAAACACTACTTATGGTTGAATGAGAAATTCTATAATATGAAAGTCACATGGATGAACGATTGCACATAAGCTTGTTCCATGTTTTCCTGTGTAACAGAGCATGACACTCTCAACTGAGCTCAGCCCAGCTGTGAACAATAAATTGTGTTCTATATTATACTACGATGTAGAAGTAATTCCACAAGCAATCCAGAGGAAACTATATCGATCAAAAGGCTTGAAACCTCATCTGGTGAAGCCTTCCACGTGAGGAGGACACACCCCATGTTCCTACGCCTAACTGCATTCAGCATTGACAAAGTGTCTTCTCAACTCTCAATTACCAAAGGTATTTGCTAATTATAGAATTCGAAACTATTGACAGTGCTAGCTTTTCCTTACTGCACTTTGTGTGCACATTCTGTGTTCTTTTCAATTTACGGAACTTTCGAGACTAAATTATGCTGAGAATTCCTTTTCTTACATACAGGTATCATAGCAGTGACTGTCTATCTGCAGCCAGAACTACAGATTGGCTCGTTCCACTGTACATTACCAAATCAAAAACAAGCATCAACGGGGAACCCAGCTAGAGCTATAAGAAAGCATGAACAGCACCACGCCAATAGTAGACACAGCCAGATCGCACAAGCAAATTTACTTCAGTCTAAAGCCGCCATTTTCCCTGGTAAACCTCCAGATTCCCACCACCGAAGGCTGACACACCAAAATTACCCCCAAACTCACCCAATGCCACACGGATCACGACCAATGCGGAGCATAAAAAAACCTACCAAATCCTGACCGCCGCCTCCTCCTCCGGAAGTGGAGACGATCCTGGACGAGTCGTCCTCGAGCGCGGGGGCCTCCCGCTGCCTCCTCCGCCCTGCGCCTCCTCCTCCGCCACCCCCGCGGCTCCCATTGCTCTGCTCCGTGACCCCGGACGCCGCCGCCTCCAACCCACGCCCTCCTCCTCCTCCACCACCACCGCCACCGAGGTACGGCGTTCGCCAGAGCTCGGCGGCGAGCGTGGGGGCGGGGTCCATGGCAGCAGCAGCAGCAATGAAGCACCTCCGCCCAAGAGGGCTCGCCGGTGGATGGAGCTCTAGGGTTTGAGGCGGGCGAGGCGACCAGATCGGGGGCGGAGAGGAGAGCTCGCAGTGGCACTGTACACTAGTAGTAGCGGTGACGAGAGGGAGAGAGCGCTTTAGAGAAGAGTGGATGGAGTGGAAGGGAGCCGTGGAGAATTAAAAACAGTGGGGAGAAGAGAAGAGGGGGGTGCTCGGGATTTGGCCACGCGGTGATTGGCGGACGCGGTCGTCTAGTCTTACCTCTACCCCGTGCGGATCGGAGATTCGGAATGGGAGCTGTGGCCGTG More
CDS seq		ATGGACCCCGCCCCCACGCTCGCCGCCGAGCTCTGGCGAACGCCGTACCTCGGTGGCGGTGGTGGTGGAGGAGGAGGAGGGCGTGGGTTGGAGGCGGCGGCGTCCGGGGTCACGGAGCAGAGCAATGGGAGCCGCGGGGGTGGCGGAGGAGGAGGCGCAGGGCGGAGGAGGCAGCGGGAGGCCCCCGCGCTCGAGGACGACTCGTCCAGGATCGTCTCCACTTCCGGAGGAGGAGGCGGCGGTCAGGATTTGACTGATTCAGAAGCAAAGCGTTTCAAGGCAAGTAAATCAGATAATAGCAGTTTAAGAACAGAGGCTGAAACTGATTCAAGAAATGCTAGCAAGTCTGGTGATCAAAATCCGCCACCACCAGAACCACCAAAGCAAGACTACATCCATGTGAGGGCAAGAAGGGGTCAAGCTACTGACAGCCATAGCCTTGCCGAAAGGGCACGTCGTGAGAAAATAAGTGAGCGGATGAAAATTCTCCAGGATCTTGTCCCTGGATGCAACAAGGTTATTGGGAAAGCATCAGTACTTGATGAGATAATTAATTATATCCAGGCTTTGCAACGGCAAGTTGAGTTTTTGTCCATGAAGCTTGAGGCTGTTAATGCTCATGTGAATAATGGAATCGAAGCATTTCCACCCAAAGATTTTGGTGCTCAGGTATACAACACGGCTCCTGGATTGACGTTTGATCCACAAACACCAAGAGAATACGCCCAGGGATCAACACCATCGGAATGGCTCCACATGCAGATTGGTGGCACCTATGAAAGAGTGACATGA More
Protein seq		MDPAPTLAAELWRTPYLGGGGGGGGGGRGLEAAASGVTEQSNGSRGGGGGGGAGRRRQREAPALEDDSSRIVSTSGGGGGGQDLTDSEAKRFKASKSDNSSLRTEAETDSRNASKSGDQNPPPPEPPKQDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKASVLDEIINYIQALQRQVEFLSMKLEAVNAHVNNGIEAFPPKDFGAQVYNTAPGLTFDPQTPREYAQGSTPSEWLHMQIGGTYERVT
Function		Transcription factor BHLH089 [UniProtKB/Swiss-Prot:Q84T08]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_03G0572200	OsMH63_03T0572200.1	Chr03	36704833	36709144	-	maker
CDS seq	ATGTGGAATTTTTATGAGCAGACTGATTCAGAAGCAAAGCGTTTCAAGGCAAGTAAATCAGATAATAGCAGTTTAAGAACAGAGGCTGAAACTGATTCAAGAAATGCTAGCAAGTCTGGTGATCAAAATCCGCCACCACCAGAACCACCAAAGCAAGACTACATCCATGTGAGGGCAAGAAGGGGTCAAGCTACTGACAGCCATAGCCTTGCCGAAAGGGCACGTCGTGAGAAAATAAGTGAGCGGATGAAAATTCTCCAGGATCTTGTCCCTGGATGCAACAAGGTTATTGGGAAAGCATCAGTACTTGATGAGATAATTAATTATATCCAGGCTTTGCAACGGCAAGTTGAGTTTTTGTCCATGAAGCTTGAGGCTGTTAATGCTCATGTGAATAATGGAATCGAAGCATTTCCACCCAAAGATTTTGGTGCTCAGGTATACAACACGGCTCCTGGATTGACGTTTGATCCACAAACACCAAGAGAATACGCCCAGGGATCAACACCATCGGAATGGCTCCACATGCAGATTGGTGGCACCTATGAAAGAGTGACATGA More
Protein seq	MWNFYEQTDSEAKRFKASKSDNSSLRTEAETDSRNASKSGDQNPPPPEPPKQDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKASVLDEIINYIQALQRQVEFLSMKLEAVNAHVNNGIEAFPPKDFGAQVYNTAPGLTFDPQTPREYAQGSTPSEWLHMQIGGTYERVT

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_03G0572200	OsMH63_03T0572200.2	Chr03	36704840	36709144	-	maker
CDS seq	ATGGACCCCGCCCCCACGCTCGCCGCCGAGCTCTGGCGAACGCCGTACCTCGGTGGCGGTGGTGGTGGAGGAGGAGGAGGGCGTGGGTTGGAGGCGGCGGCGTCCGGGGTCACGGAGCAGAGCAATGGGAGCCGCGGGGGTGGCGGAGGAGGAGGCGCAGGGCGGAGGAGGCAGCGGGAGGCCCCCGCGCTCGAGGACGACTCGTCCAGGATCGTCTCCACTTCCGGAGGAGGAGGCGGCGGTCAGGATTTGACTGATTCAGAAGCAAAGCGTTTCAAGGCAAGTAAATCAGATAATAGCAGTTTAAGAACAGAGGCTGAAACTGATTCAAGAAATGCTAGCAAGTCTGGTGATCAAAATCCGCCACCACCAGAACCACCAAAGCAAGACTACATCCATGTGAGGGCAAGAAGGGGTCAAGCTACTGACAGCCATAGCCTTGCCGAAAGGGCACGTCGTGAGAAAATAAGTGAGCGGATGAAAATTCTCCAGGATCTTGTCCCTGGATGCAACAAGGTTATTGGGAAAGCATCAGTACTTGATGAGATAATTAATTATATCCAGGCTTTGCAACGGCAAGTTGAGTTTTTGTCCATGAAGCTTGAGGCTGTTAATGCTCATGTGAATAATGGAATCGAAGCATTTCCACCCAAAGATTTTGGTGCTCAGGTATACAACACGGCTCCTGGATTGACGTTTGATCCACAAACACCAAGAGAATACGCCCAGGGATCAACACCATCGGAATGGCTCCACATGCAGATTGGTGGCACCTATGAAAGAGTGACATGA More
Protein seq	MDPAPTLAAELWRTPYLGGGGGGGGGGRGLEAAASGVTEQSNGSRGGGGGGGAGRRRQREAPALEDDSSRIVSTSGGGGGGQDLTDSEAKRFKASKSDNSSLRTEAETDSRNASKSGDQNPPPPEPPKQDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKASVLDEIINYIQALQRQVEFLSMKLEAVNAHVNNGIEAFPPKDFGAQVYNTAPGLTFDPQTPREYAQGSTPSEWLHMQIGGTYERVT More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_03G0572200	OsMH63_03T0572200.3	Chr03	36704840	36709144	-	maker
CDS seq	ATGGACCCCGCCCCCACGCTCGCCGCCGAGCTCTGGCGAACGCCGTACCTCGGTGGCGGTGGTGGTGGAGGAGGAGGAGGGCGTGGGTTGGAGGCGGCGGCGTCCGGGGTCACGGAGCAGAGCAATGGGAGCCGCGGGGGTGGCGGAGGAGGAGGCGCAGGGCGGAGGAGGCAGCGGGAGGCCCCCGCGCTCGAGGACGACTCGTCCAGGATCGTCTCCACTTCCGGAGGAGGAGGCGGCGGTCAGGATTTGGCACGTCGTGAGAAAATAAGTGAGCGGATGAAAATTCTCCAGGATCTTGTCCCTGGATGCAACAAGGTTATTGGGAAAGCATCAGTACTTGATGAGATAATTAATTATATCCAGGCTTTGCAACGGCAAGTTGAGTTTTTGTCCATGAAGCTTGAGGCTGTTAATGCTCATGTGAATAATGGAATCGAAGCATTTCCACCCAAAGATTTTGGTGCTCAGGTATACAACACGGCTCCTGGATTGACGTTTGATCCACAAACACCAAGAGAATACGCCCAGGGATCAACACCATCGGAATGGCTCCACATGCAGATTGGTGGCACCTATGAAAGAGTGACATGA More
Protein seq	MDPAPTLAAELWRTPYLGGGGGGGGGGRGLEAAASGVTEQSNGSRGGGGGGGAGRRRQREAPALEDDSSRIVSTSGGGGGGQDLARREKISERMKILQDLVPGCNKVIGKASVLDEIINYIQALQRQVEFLSMKLEAVNAHVNNGIEAFPPKDFGAQVYNTAPGLTFDPQTPREYAQGSTPSEWLHMQIGGTYERVT

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_03G0572200	OsMH63_03T0572200.4	Chr03	36704833	36709144	-	maker
CDS seq	ATGTGGAATTTTTATGAGCAGACTGATTCAGAAGCAAAGCGTTTCAAGGCAAGTAAATCAGATAATAGCAGTTTAAGAACAGAGGCTGAAACTGATTCAAGAAATGCTAGCAAGTCTGGTGATCAAAATCCGCCACCACCAGAACCACCAAAGCAAGACTACATCCATGTGAGGGCAAGAAGGGGTCAAGCTACTGACAGCCATAGCCTTGCCGAAAGGGCACGTCGTGAGAAAATAAGTGAGCGGATGAAAATTCTCCAGGATCTTGTCCCTGGATGCAACAAGGTTATTGGGAAAGCATCAGTACTTGATGAGATAATTAATTATATCCAGGCTTTGCAACGGCAAGTTGAGTTTTTGTCCATGAAGCTTGAGGCTGTTAATGCTCATGTGAATAATGGAATCGAAGCATTTCCACCCAAAGATTTTGGTGCTCAGGTATACAACACGGCTCCTGGATTGACGTTTGATCCACAAACACCAAGAGAATACGCCCAGGGATCAACACCATCGGAATGGCTCCACATGCAGATTGGTGGCACCTATGAAAGAGTGACATGA More
Protein seq	MWNFYEQTDSEAKRFKASKSDNSSLRTEAETDSRNASKSGDQNPPPPEPPKQDYIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKVIGKASVLDEIINYIQALQRQVEFLSMKLEAVNAHVNNGIEAFPPKDFGAQVYNTAPGLTFDPQTPREYAQGSTPSEWLHMQIGGTYERVT

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	2.9186945	4.118512	10.150207

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_03g0802900	RBH	0.0	0.0	2.228613
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os03g58830	RBH	0.0	0.0	0.538783
Nipponbare \| IRGSP 1.0 \| RAP-db	Os03g0802900	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_03g0038640	RBH	0.0	0.000000	0.000000
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_03g0038310	RBH	0.0	1.083895	0.000000
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_03g0038370	RBH	0.0	0.000000	2.724618
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_03g0038660	RBH	0.0	0.423948	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_03g0038200	RBH	0.0	7.332376	0.0
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_07G0085300	RBH	1.368817	1.1772425	2.8553555
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_03g0037980	RBH	0.0	0.615897	0.431015
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_03G0574300	RBH	3.4455435	1.678512	15.5579865
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_03g0038550	RBH	0.0	0.225801	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_03g0038520	RBH	0.0	0.000000	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_03g0038130	RBH	0.0	0.000000	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_03g0038190	RBH	0.0	0.360444	0.000000
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_03g0038230	RBH	0.0	0.000000	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_03G037990	RBH	0.0	6.395297	2.264073
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_03g0037770	RBH	0.0	0.000000	0.000000

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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