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
OsKeNa_05g0004270		OGI:05009380 \| 16/16			KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)			Chr05:3492738-3499153		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		GA2OX1, OsGA2ox1, ga2ox-1, OsGA2ox-1, ga2ox, ga2ox 1, GA2ox1
DNA seq		atcgcagccaactccaacatcctgagctccaatctcccactccattccggccgcgcattctcccgctctcgatcgatcgatcgatcatggtggtgccttccgcgacgacgccagcgaggcaggagacggtggtggcggcggcgccgccagctgcggcggcgtccggtgtcgtcggcggcggcggcggcgtgacgatagcgacggtggacatgtcggcggagcgcggcgcggtggcgaggcaggtggcgacggcgtgcgcggcgcacgggttcttccggtgcgtcgggcacggcgtgccggcggcggcgcccgtcgcggcgaggctggacgccgcgacggcggcgttcttcgcgatggcgccggcggagaagcagcgcgccgggccggcgagcccgctcgggtacggctgccggagcatcgggttcaacggcgacgtcggcgagctggagtacctgctcctccacgccaaccccgccgccgtcgcgcaccgggccaggaccatcgacgccatggacccctctcgcttcaggtacgtacaataccaccactcactcttagcctagcttaatcgattagttttttactccctccatttctccgtttccccgtttcatgttataagatgttatgggtttttgaatatatagattcacgtttcacgctataaaatgttctgggttttgaataaattcatgcatgatctattgatgaacttttaagagtccaaaacattttgtaacatggaacggatggagtggcgtattgtgttgcgcctacgtgtcaaagtatgcatgcttacatggcacacgtatttaaaacattgttatgcatgtatataactaatgttctctatggtttaattttttcttaatgctacccatgcatattctataataaataaagtgtgccggactccggtcacagaagaatatatttgttttaatgtatcagtttaacttcgacgataattattattgttcgaagtacaaattttcggcatatttaatagtgtggccttgttctatcaaaacataatttttcgtaagagattatatacttgtataacttatttttggattgtagggatcctttccctatggttttacttcaaaagatgacttacatttggattggtgataaagaatatacaactaagtagacaaagttatatctagttcattttgaaaagttcaaggctcTtttttcaacgggaaaggagtatcctatataagatatattatacagttaactctgtgccttttaaaagctctgttgacagtaaaatctcatgtagctggttcatccaaaaaaaaaattctcatgtagctgggcatacacgagcTtttttttttttaagaacttacatacacgagcttaattacttctctcgatccttttgcggatgcgcttggttgctcgtaataaattttgtcacaaatctttgataaccccaccatttcccaaatttaagcatacatggtggtagaactatattcactaagttttacagtgtcgttgttacaacaataaactaatattgcaaatattgcaatagttacaatataattaatttcttctatgtattatgtactgaaacgcatatcaatcacatgcatggcactgcatatatggtcttaaactatatatgaggcaacgtgaataatatatattattaattaagtattacccgtatacacacacatacacatataattaaagattgtcatttttattatttttgctagacccctcgtccctgtgcatcactaaagtatttttattgaactagctgacctctacaggggtttaaagcttgattacttaattaaactgttaatgaaagacgactatatatgatccaataatatgttaattaagacggtgcatgggtgtccggtgtccctgcagtgtgagatgaacatgcaaaaaaaattaaATatatatcatgcTGtgttccttaactaaccggccacatctacatattcatgtcataatcctgcatctgtctcactgctgatgtgatgccgtccaagcagtagtagtgtgggttggtagcagtaaaagggttttgtcagcttggttaggttttcctatctacaatatatctatctatctttttcatgtgttgtcaaaatacagtgagatatgcttacatatttctgcatctgagtactgctcaGgggtgatgcaacgaagcatcaggtacatatctatatatttagagggctcagggctccatcgtttagccttcagtttataggcataagaaaaaataaattttatagttaatttttaggttttttttatcgtaatttattttttcagtatttactaagaacatgtgtataaaagttttatctatatattattttttaatcactaatatactgtttcgcttataactatatagtagtataaggtatagacttgcatgatgtctatctacatgcatgcatgggatgcatatgtaggataggcttggcttgagagatgtctagctagctatgggtttttcatcagctacagggcaattaatttatagatatgcataatatattgtgttcagaagtcaaaagaaggccaagttggaatcatgcatacctgcactgcactcatgccagttgcaagcttgcaattgcaactgggcttgcttcttttcttttcagctggtttggcttgcatattttccatgttatgatcttctgatgtagccttttgactatatatcaaggatggactaaatgttagtttacacaataaggaaaaggatggaaatgttacactcatgtcatcatatactataacttaaggtaaattaagatcaatttacattaattttattaagaaaaagttgactcaagaaagctgcagtttatgttataattttaacttattatgttagcatatggggTtttcatttttaattcttcatagtactacttcagtacatatccatatgtatattgtcattttcagacacaggtcccatcaattaaatcacggaaatgcatgagtacatagttttcaaaacaataattatcacaataatggcataattgatgctatgatggacaggccaatgataagttagttccaacaatttaagatcatacatagctagtttctaaagcaaaagaaaagcatgcaactgatgggacataacaaacttgatagctccacaaaatgggcataagaaattttctgatgaaagttaggtatcattgtctaaccaaatagacattggaaaaggatcaagcataccaattgatattttcatttttgctctaaaaaatgactacataagtggttttgaaagcgaaagcgaatattgccattggagaaaatgtctaccaactaagacaataatatatcagattttccttaactatctttgtgtatgctgaatgagagctcacatactaggagagattactcaccactcactgactgtactcagaaccaggtagtggcctaatcagagtttgctgagagaaaatatgatgaaatggacaagaaaaccctcacttaggtagttagaagactcctctcagggtccctctccaacaaactgtatatatttgtgtatcaaccaatctgacatatatgcagtggtttccaattaatggcaatatccaaccaccaactgatgcagcaacagagtgagtacttgaagcatccttatctaccagaaagctctgcaagcttaattagcaaagtacagcaggttttcatgtagaaaatgatgtgtttagttgggatatacatgatatatactttttgaaactcctcttagttctctatcaccatacatacatcagccattaatatataatatccatactagtacaagaatattaatcttaatgccttaatcaactcaaaagcctaagcttaattatcacaagcaCATcattttggaaacatattgatagcaacatgccagtgaagtagtgaacacaaagaatgggataataatgatcaagaatgcatcaggttaagaacagaatggctaggaaatcttcacagtaaccattttgctatatgaaaagtgcaagacaagaaggaagaacaacctcTttttgtcaaatgcaacagacaggggcccacatggaagtacacacatgtctgatgagaataaaattatccaggcccctaaagagcatatctatgctatccatataaagccaaacaaaagaaaggaggcacacatgcaaggagtcctctttatggtaagataaaatgaaatgtcccagaggttgtgtagtggcaggggcagtgatacttgtgatccacgcactgatgggtctttccatggagcagtggaaaaaagtatggccaatcctgtcaacaacacatttttgcccattggaaaatttgtcacccctcggctgcatgatgtactgctgattctgtggcctatccatgcatcacaagattcacaagaaacgaatatatcacgtcttgtagatggtggtgcacaagcacagaggcatacacatatacccatcagtgtatcatcttttctaactcatcaggcaggcatgccgagggagggtgggtgcagcttttgatttgctgcagccatcaatcagtcaaagaccttgctcctctttctccagcttctttttacttgtcatggcacatccaacctgattctgtgataacagcattcttttgataaaatcaatttcaagttgattgtgctcacttgctgatatcctccctcactctgttgcagtgctattgtgaatgagtacattgaagccatgaagaagctcgcatgtgagatcctggacctgttaggagaggggctaggtctcaaggaccccagatacttcagcaagcttaccacaaacgctgacagtgactgcctcctgaggatcaaccactaccctccatcatgcaacattcacaaacttgaccatgatgaccaatgcaatatcaagagccttgttagcaccaaggctagcaatggtgggaatctgatggcaggtgggcgcattgggttcggcgagcactctgacccgcagatccttagcttgctccgagcaaacgatgtggaagggctacaggtgtttgtgccggaccacgagggcaaggagatgtgggttcaggtgccatcggacccatcggccattttcgtcaatgttggtgatgtcctccaggtagtcacagtaaatgactagagcaaaaaaaaacagcattacatatatcagaataaggtttactattatcaaaagaaattatttcatagattataaaaggaccgcaaagaaattatttcatagattataaaaggaccgcattgactatcatatgatttacaaattatgtggctttcttccagttattcataaaaaatgtttctttgctcactgcaaaacacacaggaaagtaatatatatttaatcatttgattcataaggctgcagcactgctgaacaatgtttcttttgtcaaaaaaaatgcaacactgatatgtttgttattttcagactcaaattcattgtattgctgcaattcttaccagctgacaaaaaaatctctttctatcctgcaactaccgctgttttactcaacttaaaaaaacaaatcactaaaacatgatgctgtaagcctggacatagttttgcattcctgacattcttcggcttatcctttctttggcctttatttcttcaggctctgacaaatgggaggctgataagtatccggcacagggtaattgcaaccgcctgcaggccaaggctgtccacaatatacttcgcatcaccaCccctgcatgcacgaatctcggcactcccagagacaatcacagccagcagcccacgccgataccgatcattcacctgggctgagtacaagacgacaatgtactcactccgcctgagccacagccgcctagaactcttcaaaattgacgatgatgacagcgacaatgccagtgagggaaaagcataggaattgctggttaaattgcagacgatgcctatggaccagtggggattaggaagctgaaactgtccccaaaattttggctctctggcagtctggctactatcgtcagatatctcactattatgatggtgtagtgcctaagttgacgggtgtgtaatatcgttagcagtctacagaagctatggttgtacggaagtaatgtactgtcgccttttcagctaactatccatgttctctcttatatgtaatgagttagttgacggatgtgtaatattgctagcattgtatataagctatggttgtatggaagtatgtaatatagccttttcagctaactatccgtgttccctttgtccctctaaagcacaaaagtaagacctaactacagagcacaatagatagtttttgagaactatgatcTAttaagaaatcttaagagaaatcagaatacttttgac More
CDS seq		atggtggtgccttccgcgacgacgccagcgaggcaggagacggtggtggcggcggcgccgccagctgcggcggcgtccggtgtcgtcggcggcggcggcggcgtgacgatagcgacggtggacatgtcggcggagcgcggcgcggtggcgaggcaggtggcgacggcgtgcgcggcgcacgggttcttccggtgcgtcgggcacggcgtgccggcggcggcgcccgtcgcggcgaggctggacgccgcgacggcggcgttcttcgcgatggcgccggcggagaagcagcgcgccgggccggcgagcccgctcgggtacggctgccggagcatcgggttcaacggcgacgtcggcgagctggagtacctgctcctccacgccaaccccgccgccgtcgcgcaccgggccaggaccatcgacgccatggacccctctcgcttcagtgctattgtgaatgagtacattgaagccatgaagaagctcgcatgtgagatcctggacctgttaggagaggggctaggtctcaaggaccccagatacttcagcaagcttaccacaaacgctgacagtgactgcctcctgaggatcaaccactaccctccatcatgcaacattcacaaacttgaccatgatgaccaatgcaatatcaagagccttgttagcaccaaggctagcaatggtgggaatctgatggcaggtgggcgcattgggttcggcgagcactctgacccgcagatccttagcttgctccgagcaaacgatgtggaagggctacaggtgtttgtgccggaccacgagggcaaggagatgtgggttcaggtgccatcggacccatcggccattttcgtcaatgttggtgatgtcctccaggctctgacaaatgggaggctgataagtatccggcacagggtaattgcaaccgcctgcaggccaaggctgtccacaatatacttcgcatcaccaCccctgcatgcacgaatctcggcactcccagagacaatcacagccagcagcccacgccgataccgatcattcacctgggctgagtacaagacgacaatgtactcactccgcctgagccacagccgcctagaactcttcaaaattgacgatgatgacagcgacaatgccagtgagggaaaagcatag More
Protein seq		MVVPSATTPARQETVVAAAPPAAAASGVVGGGGGVTIATVDMSAERGAVARQVATACAAHGFFRCVGHGVPAAAPVAARLDAATAAFFAMAPAEKQRAGPASPLGYGCRSIGFNGDVGELEYLLLHANPAAVAHRARTIDAMDPSRFSAIVNEYIEAMKKLACEILDLLGEGLGLKDPRYFSKLTTNADSDCLLRINHYPPSCNIHKLDHDDQCNIKSLVSTKASNGGNLMAGGRIGFGEHSDPQILSLLRANDVEGLQVFVPDHEGKEMWVQVPSDPSAIFVNVGDVLQALTNGRLISIRHRVIATACRPRLSTIYFASPPLHARISALPETITASSPRRYRSFTWAEYKTTMYSLRLSHSRLELFKIDDDDSDNASEGKA
Function		Gibberellin 2-beta-dioxygenase 1 [UniProtKB/Swiss-Prot:Q5W726]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsKeNa_05g0004270	OsKeNa_05g0004270.01	Chr05	3492738	3499153	+	NAM
CDS seq	atggtggtgccttccgcgacgacgccagcgaggcaggagacggtggtggcggcggcgccgccagctgcggcggcgtccggtgtcgtcggcggcggcggcggcgtgacgatagcgacggtggacatgtcggcggagcgcggcgcggtggcgaggcaggtggcgacggcgtgcgcggcgcacgggttcttccggtgcgtcgggcacggcgtgccggcggcggcgcccgtcgcggcgaggctggacgccgcgacggcggcgttcttcgcgatggcgccggcggagaagcagcgcgccgggccggcgagcccgctcgggtacggctgccggagcatcgggttcaacggcgacgtcggcgagctggagtacctgctcctccacgccaaccccgccgccgtcgcgcaccgggccaggaccatcgacgccatggacccctctcgcttcagtgctattgtgaatgagtacattgaagccatgaagaagctcgcatgtgagatcctggacctgttaggagaggggctaggtctcaaggaccccagatacttcagcaagcttaccacaaacgctgacagtgactgcctcctgaggatcaaccactaccctccatcatgcaacattcacaaacttgaccatgatgaccaatgcaatatcaagagccttgttagcaccaaggctagcaatggtgggaatctgatggcaggtgggcgcattgggttcggcgagcactctgacccgcagatccttagcttgctccgagcaaacgatgtggaagggctacaggtgtttgtgccggaccacgagggcaaggagatgtgggttcaggtgccatcggacccatcggccattttcgtcaatgttggtgatgtcctccaggctctgacaaatgggaggctgataagtatccggcacagggtaattgcaaccgcctgcaggccaaggctgtccacaatatacttcgcatcaccaCccctgcatgcacgaatctcggcactcccagagacaatcacagccagcagcccacgccgataccgatcattcacctgggctgagtacaagacgacaatgtactcactccgcctgagccacagccgcctagaactcttcaaaattgacgatgatgacagcgacaatgccagtgagggaaaagcatag More
Protein seq	MVVPSATTPARQETVVAAAPPAAAASGVVGGGGGVTIATVDMSAERGAVARQVATACAAHGFFRCVGHGVPAAAPVAARLDAATAAFFAMAPAEKQRAGPASPLGYGCRSIGFNGDVGELEYLLLHANPAAVAHRARTIDAMDPSRFSAIVNEYIEAMKKLACEILDLLGEGLGLKDPRYFSKLTTNADSDCLLRINHYPPSCNIHKLDHDDQCNIKSLVSTKASNGGNLMAGGRIGFGEHSDPQILSLLRANDVEGLQVFVPDHEGKEMWVQVPSDPSAIFVNVGDVLQALTNGRLISIRHRVIATACRPRLSTIYFASPPLHARISALPETITASSPRRYRSFTWAEYKTTMYSLRLSHSRLELFKIDDDDSDNASEGKA More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsKeNa_05g0004270	OsKeNa_05g0004270.02	Chr05	3492738	3499028	+	IsoSeq
CDS seq	atcgcagccaactccaacatcctgagctccaatctcccactccattccggccgcgcattctcccgctctcgatcgatcgatcgatcatggtggtgccttccgcgacgacgccagcgaggcaggagacggtggtggcggcggcgccgccagctgcggcggcgtccggtgtcgtcggcggcggcggcg
Protein seq	IAANSNILSSNLPLHSGRAFSRSRSIDRSWWCLPRRRQRGRRRWWRRRRQLRRRPVSSAAAA

Event Type	Chromosome	Start	End	Strand	Alternative mRNAs	Total mRNAs	Source
RI	Chr05	3492738	3493266	+	OsKeNa_05g0004270.01	OsKeNa_05g0004270.02,OsKeNa_05g0004270.01	All

Expression

	Leaf	Root	Panicle
FPKM	0.0	0.0	27.121450

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_05g0158600	RBH	0.233149	0.119682	49.877514
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os05g06670	RBH	0.153728	0.000000	11.322511
Nipponbare \| IRGSP 1.0 \| RAP-db	Os05g0158600	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_05g0004230	RBH	0.030198	0.831486	38.641613
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_01g0015120	RBH	0.0	0.0	0.0
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_05g0004180	RBH	0.156887	3.820884	75.413864
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_05g0004260	RBH	0.000000	0.000000	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_05g0004300	RBH	0.000000	0.000000	204.704681
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_05G0050000	RBH	0.5381565	6.4431595	1.211367
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_05g0004080	RBH	0.074158	0.297883	16.046915
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_05G0051000	RBH	0.6656605	8.0229635	2.6809195
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_05g0004230	RBH	0.0	0.035353	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_05g0004140	RBH	0.0	0.764263	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_05g0004230	RBH	0.0	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_05g0004250	RBH	0.099135	0.321136	15.274749
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_05g0004300	RBH	0.000000	2.177161	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_05G004170	RBH	0.000000	0.000000	16.392864
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_05g0004380	RBH	0.000000	3.988183	110.307198

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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