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
OsLiXu_11g0011350		OGI:01044490 \| 16/16			LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)			Chr11:13686076-13692462		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		cccccgctgccgtcgccatcacggagcaccgccgccgcgtgcggatccgacctccatgcagtcggtgtgagggcttgaccaggccgacaggccctcacatccgccgccgcctcctcttactcccccatctctgggcctctggccgccatcgcacaatccgtctgtgcacgtgaacacgtcttcactcttctcggtctagcttcccccgctgccgcgccgtcgggcatcctctggtcgccgccgtctcttccttcccatggagcagatccacggtgcaaggcgtccttcggccaatctgttgcctcccttccccgcaacagatgtggaaggggcccttactttcaaaggttgaatttatcgtatgaatactgaacatcatcatgcagctgcttggaatactcaagaacctcctccatcacagcaaaaaggttgtgacattttctttgtgccatttcttcaattaggtacacatgttcagtattcataagataaattgtgcatattgtcttatgttgtatgacattttctaactgtttaaaattctggttcgtctttgccaagttatcagggctctatgctcctgtaagcatgtagtagtcctagaacaaaatggaagcaacactgccagtggcttatgtgagcatgtgttgattcctggatggccagcctcttgctcgagctgctgtagtcccaggctatccagggaggagatgttagcagccaagctcaaggaaatcattatcgcaccgctttctcgaggtgtcattcttttgcatagtgatctttgttggcagagaaaaaacatgttacatgacattgttactgtgtttacaaaaggtgagagaagagggtttgaggaagaaaaatgaattatcatttcttattggttataggttagtacaagaaaacattttgggcaatctattgtggataatagcaaagggagagtttatctaaccaacttaccattattattcagcaatatagcatagcaatagcttcagctcactaaatctgaaattttcattaatcaattatttgtcagctcgacatcatcagtgatagagctatagatgttagcagctatagatgcaacatctgatgggatattcgataatcttatttgacagttcaacatctggtgagatacttggtagagctatagatgcagaagctagaaaacatggcggcttcatgagaacatttaggtagagtgtagctgttgcagaacaattgcaggacactggcatatgagatgctaatatcaactcaattttggaattcccttctattcaggggttgcgtatatagcactcttctgacttacattgtaccccttcttgataatactctaggagttaatttattttcactggttttacacaggtatttcatagctgttcaaaagtgccttggtctatactcagagaatggtcaatattgcactaatgttgaccgattatgcacattgtatatctcacttaaaaaagaatatggttggtcatctgctgttaaggtaaactacctcaaactgtttttattttttctttgttccttcatgttaaattgttgagctctccgggcacacaacagtatcttgatatatgtggtatttatttattctatattgcaatactaatttgctgaatcccaagttgtctatccatatatatggtgagtggggcatgcactgtagaagctgtggatctaaaattgtctctaattgcaacagcgcatgccccttgatttcctgggaggagagaaatttcaggaggcagcagataattatgtcagacccctattaaccaaggtaaattcagcagctcttgggaggtactttaagtttctatttaaggagtctcatttatggttaccatttgtttttcttagtgtataccttataccctttttcaatttttcaggcagcataatgtttctctttgttgaaattgattaacatgtctcatattttgtagggagtaccatcactattttctgatcttagcccattgtatgagcaacctggcaaggtaatagcagttatgcttctcaaaatcattttttgtacttctttttctctgttgtagcatgatctttcagattgccctacataatgtttattttttatacctatagccatattgattacttcagatttgacatggaaaaatgtgaaatatttaaaagaactcagattcagtcagaactattgtgtaagcatgcatagaaagctaccctaaatagacttgatgcccatttgtcaagtacagcctacatgtgaagtaatctaatacaagcagttataaattaagtatatataaatcgaatctcagaaagcctatgaataagatagctgagatttcttataaaatggtaacttcctttcctgttgcctcttcctgttaatgtacatactgtgaatgggaagcctatgttgccatgctgataccaactacaggtttggagcctcaatgtaaaacatgtctatagtttctttggtttagatagtagactgatttcgtgttgtacagaaacaataaacatggaataggcccatattatgtctgcaatcatcttaatctgctagatgatattatcaggtatattcctcccttcttgctgatttcttcgtgaaaaactccaatagggctgtatttgaaatcgaactaaagtggtacaggatagaggctgaacaagggaaactaaattataaggattctgatgagttgcttgaattttttcagaaacgtagcattctggctggttgtcacttcttattccgggaactagaagatgcagtccagttatgaattcaatcattttcagttatggcttcgattcttaacaaggtcacccacctgatggctgctattcaaaaccatttgcaaagcctgttgtcaaggtaaagccgtaaaggttagtttaaacatggtaaacaacgagatgcctcatggatctttctacaagatagaccgcacatgtttagggaatcacgtaaacttatcccttagcagggtaatggacggtcccagctagggttttttagggcaggtagatgcggccgccgcggcggaggtggacgcgaccacggcaacggcaatgaccacgccagtgtgaggcgaatgcgcggaccagcggcgcgtggcctcagtgctagggaaaacagagggtaggagaaggatgatatcaagaacggggcagcaacacgtaggattgggagacgaggcattcctgagcaccgtcgctgtgtcagcagatctgtccgcgcggatccatcgttttattttccttagagccacaatacccatagcagcacggccaaaatcagtagtcaaccctaatagatcgcttctttagctatctctgcaatacctctcttttcttttctcacttacagatccaccattctcggatcagagctatagatgagaaccctacctcatagtctctgatgttaacgcaactatagtttgttattcttctttttcctcttttgtattcttgccttttaatttacgggtaaattacaacttttgctttttatggcacaggatgtaaaacaacttctattcttgggccttggaatcgctgcgcgcacgtctttctctaccaggtgatgtacccatatatctatatttttatatggaatcagctgtacattttttcagtccctttgtgtttcctagctaatttcctaaattgtgcatatacagttagatacactcttcctttcttttgagctttcatgcaaccgagtttgagaaggctagaaagttatttgatttcaaaatgatccatgcaaacttctaattttataccgatggtacagcagtaacaataattgatgtggccttgctcacacacagaagctatattagtccactttgaagtacagtttatagccctcagcctacttttagatcatgtgttccattttaggtggatagagttgcatggatgctcatggatccatgcaacactatagtttccactccatcagcatttgggaataccttctgcacctgcaccgctggtattataccatcacagtggtaaatactaaatgttgccatatctctttaggaatagaaaacagttccgaatacaaaaaaattccatatttctttaaaaggcaatattaaatgctgtatttattgtgcaccattatttgctcctctttattgtgtaattttattcttaccattatcatcttgttatattcttactatatcttattagagcactagaaaccactcttttatcgtcttatcatatagcttactatcttacgttgtacatattttgctttcaccaaaaacaattggtttttatatgcacctacagtaataccacctatgattttagatctgtctccattctaaaagagcaaagctttgttcaaccactgacatacaaacaacctatattccagcttctctatgatggctcgaacatctgctatgctgagattcacccagttagatgaagaagattttgtaagtacacacaaataccttccaagcctgcatcaacgtaatatcctatctgttactaatgggggaattttttataggctctcccacctgagattgtagccagctgcaatggataccatggaaaatatttaaccttggtcacacgccataacaaaccagtgaatgttaggctcgaaaaaagaggccagtcattctatatctgcaaaggttggaaaaaatttgttgagcttactggcttacgcgttggacaatgtattagattcagtgtttcttctccatcaacacttgatctcctcatacttgacaagcatggagttcccaagcttcccatgcctgcttcatcagaagaacacctcaggttcaaagcaaaaaggtctatacaccaaaacagcaaaggtattcgtatcacacaaacacctttcatcagaaataatatgattgtaatctcgaaccagttagctaggaactcatctattccattagttacaccatactccgtatcatttaggataacactttacttactagcatgctccatatttctatttcaggccattcatccagtcatggtccagagtcatcgtctcctatcaatcacaggtcaacaaatcaggtcaactcactatccatgtctttactttcaattacgctcctcttttaatcctaacgaaatttcggttcgtgcgaataacatgacgccacgcaacaacgctatcttttaatcgtacagatcaacctatcataccacttctgcagttctatacctgtctatgcatgtatgctccgcctttgattccatcagatggctatctttccatctgtgtaatgctctaggcaccttagctgatcttcatcatgtggatcaataaacaaatttgcgtttattataacaccggtcatcagcctatgttactgttcttactttgaaccacaccgctccacaactgatccactcgcattaattttggtcccgcctaaaatatatttaccttcttattttagcgctgatgcatctattctcactccatgttaagatacaccatagaagaaataccagaggcacttctacaaatcgaaccattccacattgtcattttctatagtattaatagctggtttctttcatacgcattgaaaatgcttatagaatactttcttgcagcgaacaccaaacccaagtttgcagatgatatcgaagcgcagatactgggagcccttcaaccagcatgatccttcacagatcgacagaccatcgttgcaacctaaaaaacagatggacaaatttcgccctcaacaatggcataaagctccacacagtatgcattttccatttttaagactacccatcgaggagcaaccgtcgatatcttctgaatatgctatcaatgtagtctgatctcatgcttttgttagcggcaaagctcggtgtctccatacagtctgctgtttatgtaatatactgcccatgttataatcgttacccctgtgcactatagacacgctgtgggcactgcacttatcactctattatggcacttccatatgtagctactgatgcagacaccgattaacctccatgcctatgtatgcactattcactgccttagctgtagagtcccggtatccttccctcgatgcttattacctttttgggatcattagctatacatactgtcatgtatttactgcctttgcctctttaaaatggttggttatgcctgtgcacatccttgctgcttcgcccagggtccccaggcggcgcgccattggcgcgcccaaccctctagtaataaataatgaggggagaaagctaaagaagaaagtcaccgccgctggattggtggggcgattggggagcagttcaatgttcatcagcttacaatttggctgg More
CDS seq		atgcagctgcttggaatactcaagaacctcctccatcacagcaaaaagtcccaggctatccagggaggagatgttagcagccaagctcaaggaaatcattatcgcaccgctttctcgagttcaacatctggtgagatacttggtagagctatagatgcagaagctagaaaacatggcggcttcatgagaacatttaggtatttcatagctgttcaaaagtgccttggtctatactcagagaatggtcaatattgcactaatgttgaccgattatgcacattgtatatctcacttaaaaaagaatatggttggtcatctgctgttaagcgcatgccccttgatttcctgggaggagagaaatttcaggaggcagcagataattatgtcagacccctattaaccaaggatgtaaaacaacttctattcttgggccttggaatcgctgcgcgcacgtctttctctaccagcttctctatgatggctcgaacatctgctatgctgagattcacccagttagatgaagaagattttgctctcccacctgagattgtagccagctgcaatggataccatggaaaatatttaaccttggtcacacgccataacaaaccagtgaatgttaggctcgaaaaaagaggccagtcattctatatctgcaaaggttggaaaaaatttgttgagcttactggcttacgcgttggacaatgtattagattcagtgtttcttctccatcaacacttgatctcctcatacttgacaagcatggagttcccaagcttcccatgcctgcttcatcagaagaacacctcaggttcaaagcaaaaaggccattcatccagtcatggtccagagtcatcgtctcctatcaatcacagcgaacaccaaacccaagtttgcagatgatatcgaagcgcagatactgggagcccttcaaccagcatgatccttcacagatcgacagaccatcgttgcaacctaaaaaacagatggacaaatttcgccctcaacaatggcataaagctccacacagtatgcattttccatttttaagactacccatcgaggagcaaccgtcgatatcttctgaatatgctatcaatgtagtctga More
Protein seq		MQLLGILKNLLHHSKKSQAIQGGDVSSQAQGNHYRTAFSSSTSGEILGRAIDAEARKHGGFMRTFRYFIAVQKCLGLYSENGQYCTNVDRLCTLYISLKKEYGWSSAVKRMPLDFLGGEKFQEAADNYVRPLLTKDVKQLLFLGLGIAARTSFSTSFSMMARTSAMLRFTQLDEEDFALPPEIVASCNGYHGKYLTLVTRHNKPVNVRLEKRGQSFYICKGWKKFVELTGLRVGQCIRFSVSSPSTLDLLILDKHGVPKLPMPASSEEHLRFKAKRPFIQSWSRVIVSYQSQRTPNPSLQMISKRRYWEPFNQHDPSQIDRPSLQPKKQMDKFRPQQWHKAPHSMHFPFLRLPIEEQPSISSEYAINVV
Function		B3 domain-containing protein Os10g0323000 [UniProtKB/Swiss-Prot:Q7XFU9]

Transcripts

sorry

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLiXu_11g0011350	OsLiXu_11g0011350.02	Chr11	13686076	13692294	+	NAM
CDS seq	atgcagctgcttggaatactcaagaacctcctccatcacagcaaaaagtcccaggctatccagggaggagatgttagcagccaagctcaaggaaatcattatcgcaccgctttctcgagttcaacatctggtgagatacttggtagagctatagatgcagaagctagaaaacatggcggcttcatgagaacatttaggtatttcatagctgttcaaaagtgccttggtctatactcagagaatggtcaatattgcactaatgttgaccgattatgcacattgtatatctcacttaaaaaagaatatggttggtcatctgctgttaagcgcatgccccttgatttcctgggaggagagaaatttcaggaggcagcagataattatgtcagacccctattaaccaaggatgtaaaacaacttctattcttgggccttggaatcgctgcgcgcacgtctttctctaccagcttctctatgatggctcgaacatctgctatgctgagattcacccagttagatgaagaagattttgctctcccacctgagattgtagccagctgcaatggataccatggaaaatatttaaccttggtcacacgccataacaaaccagtgaatgttaggctcgaaaaaagaggccagtcattctatatctgcaaaggttggaaaaaatttgttgagcttactggcttacgcgttggacaatgtattagattcagtgtttcttctccatcaacacttgatctcctcatacttgacaagcatggagttcccaagcttcccatgcctgcttcatcagaagaacacctcaggttcaaagcaaaaaggccattcatccagtcatggtccagagtcatcgtctcctatcaatcacagcgaacaccaaacccaagtttgcagatgatatcgaagcgcagatactgggagcccttcaaccagcatgatccttcacagatcgacagaccatcgttgcaacctaaaaaacagatggacaaatttcgccctcaacaatggcataaagctccacacagtatgcattttccatttttaagactacccatcgaggagcaaccgtcgatatcttctgaatatgctatcaatgtagtctga More
Protein seq	MQLLGILKNLLHHSKKSQAIQGGDVSSQAQGNHYRTAFSSSTSGEILGRAIDAEARKHGGFMRTFRYFIAVQKCLGLYSENGQYCTNVDRLCTLYISLKKEYGWSSAVKRMPLDFLGGEKFQEAADNYVRPLLTKDVKQLLFLGLGIAARTSFSTSFSMMARTSAMLRFTQLDEEDFALPPEIVASCNGYHGKYLTLVTRHNKPVNVRLEKRGQSFYICKGWKKFVELTGLRVGQCIRFSVSSPSTLDLLILDKHGVPKLPMPASSEEHLRFKAKRPFIQSWSRVIVSYQSQRTPNPSLQMISKRRYWEPFNQHDPSQIDRPSLQPKKQMDKFRPQQWHKAPHSMHFPFLRLPIEEQPSISSEYAINVV More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLiXu_11g0011350	OsLiXu_11g0011350.03	Chr11	13686513	13692462	+	NAM
CDS seq	atgcaacatctgatgggatattcgataatcttatttgacagttcaacatctggtgagatacttggtagagctatagatgcagaagctagaaaacatggcggcttcatgagaacatttaggtatttcatagctgttcaaaagtgccttggtctatactcagagaatggtcaatattgcactaatgttgaccgattatgcacattgtatatctcacttaaaaaagaatatggttggtcatctgctgttaagcgcatgccccttgatttcctgggaggagagaaatttcaggaggcagcagataattatgtcagacccctattaaccaaggatgtaaaacaacttctattcttgggccttggaatcgctgcgcgcacgtctttctctaccagcttctctatgatggctcgaacatctgctatgctgagattcacccagttagatgaagaagattttgctctcccacctgagattgtagccagctgcaatggataccatggaaaatatttaaccttggtcacacgccataacaaaccagtgaatgttaggctcgaaaaaagaggccagtcattctatatctgcaaaggttggaaaaaatttgttgagcttactggcttacgcgttggacaatgtattagattcagtgtttcttctccatcaacacttgatctcctcatacttgacaagcatggagttcccaagcttcccatgcctgcttcatcagaagaacacctcaggttcaaagcaaaaaggccattcatccagtcatggtccagagtcatcgtctcctatcaatcacagcgaacaccaaacccaagtttgcagatgatatcgaagcgcagatactgggagcccttcaaccagcatgatccttcacagatcgacagaccatcgttgcaacctaaaaaacagatggacaaatttcgccctcaacaatggcataaagctccacacaggtccccaggcggcgcgccattggcgcgcccaaccctctag More
Protein seq	MQHLMGYSIILFDSSTSGEILGRAIDAEARKHGGFMRTFRYFIAVQKCLGLYSENGQYCTNVDRLCTLYISLKKEYGWSSAVKRMPLDFLGGEKFQEAADNYVRPLLTKDVKQLLFLGLGIAARTSFSTSFSMMARTSAMLRFTQLDEEDFALPPEIVASCNGYHGKYLTLVTRHNKPVNVRLEKRGQSFYICKGWKKFVELTGLRVGQCIRFSVSSPSTLDLLILDKHGVPKLPMPASSEEHLRFKAKRPFIQSWSRVIVSYQSQRTPNPSLQMISKRRYWEPFNQHDPSQIDRPSLQPKKQMDKFRPQQWHKAPHRSPGGAPLARPTL More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLiXu_11g0011350	OsLiXu_11g0011350.01	Chr11	13686076	13692295	+	NAM
CDS seq	atgcagctgcttggaatactcaagaacctcctccatcacagcaaaaagtcccaggctatccagggaggagatgttagcagccaagctcaaggaaatcattatcgcaccgctttctcgaggtatttcatagctgttcaaaagtgccttggtctatactcagagaatggtcaatattgcactaatgttgaccgattatgcacattgtatatctcacttaaaaaagaatatggttggtcatctgctgttaagcgcatgccccttgatttcctgggaggagagaaatttcaggaggcagcagataattatgtcagacccctattaaccaaggatgtaaaacaacttctattcttgggccttggaatcgctgcgcgcacgtctttctctaccagcttctctatgatggctcgaacatctgctatgctgagattcacccagttagatgaagaagattttgctctcccacctgagattgtagccagctgcaatggataccatggaaaatatttaaccttggtcacacgccataacaaaccagtgaatgttaggctcgaaaaaagaggccagtcattctatatctgcaaaggttggaaaaaatttgttgagcttactggcttacgcgttggacaatgtattagattcagtgtttcttctccatcaacacttgatctcctcatacttgacaagcatggagttcccaagcttcccatgcctgcttcatcagaagaacacctcaggttcaaagcaaaaaggccattcatccagtcatggtccagagtcatcgtctcctatcaatcacaggtcaacaaatcagcgaacaccaaacccaagtttgcagatgatatcgaagcgcagatactgggagcccttcaaccagcatga More
Protein seq	MQLLGILKNLLHHSKKSQAIQGGDVSSQAQGNHYRTAFSRYFIAVQKCLGLYSENGQYCTNVDRLCTLYISLKKEYGWSSAVKRMPLDFLGGEKFQEAADNYVRPLLTKDVKQLLFLGLGIAARTSFSTSFSMMARTSAMLRFTQLDEEDFALPPEIVASCNGYHGKYLTLVTRHNKPVNVRLEKRGQSFYICKGWKKFVELTGLRVGQCIRFSVSSPSTLDLLILDKHGVPKLPMPASSEEHLRFKAKRPFIQSWSRVIVSYQSQVNKSANTKPKFADDIEAQILGALQPA More

Event Type	Chromosome	Start	End	Strand	Alternative mRNAs	Total mRNAs	Source
SE	Chr11	13686834	13687462	+	OsLiXu_11g0011350.02	OsLiXu_11g0011350.02,OsLiXu_11g0011350.01	All
A5	Chr11	13691171	13691734	+	OsLiXu_11g0011350.01	OsLiXu_11g0011350.03,OsLiXu_11g0011350.02,OsLiXu_11g0011350.01	All
A5	Chr11	13686834	13687462	+	OsLiXu_11g0011350.03	OsLiXu_11g0011350.03,OsLiXu_11g0011350.01	All

Expression

	Leaf	Root	Panicle
FPKM	1.238073	0.0	0.586129

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_11g0625400	SBH	0.0	0.0	0.0
Nipponbare \| IRGSP 1.0 \| MSU	NA	NA	NA	NA	NA
Nipponbare \| IRGSP 1.0 \| RAP-db	Os11g0625400	SBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_11g0011650	RBH	1.601796	3.045177	10.002102
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_11g0011650	RBH	0.643790	4.706949	3.228683
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_11g0011600	RBH	2.506832	10.384840	21.202873
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_11g0011340	RBH	0.392173	0.159919	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_11g0011760	RBH	11.183613	6.418734	16.585363
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_11G0186200	RBH	4.9069885	14.5777065	8.512428
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_11g0011620	RBH	1.075955	0.206617	2.476452
Zhenshan 97 \| ZS97RS3 \| HZAU	NA	NA	NA	NA	NA
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_11g0011750	RBH	0.427724	0.467581	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	NA	NA	NA	NA	NA
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_11g0011510	RBH	15.389654	21.339647	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_Ung0068500	RBH	0.000000	0.0	0.000000
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_11g0011580	RBH	0.862745	5.257153	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_11G011490	RBH	1.234832	2.386131	1.983509
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_11g0011480	RBH	6.176347	31.824049	9.436767

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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