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
OsLima_06g0008630		OGI:06017920 \| 15/16			LIMA \| Os127564RS1 \| Gramene(+IsoSeq)			Chr06:6652873-6658059		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		OsSERK3, OsSERL6, OsBI-SERK1, OsBAK1-3
DNA seq		ctttttgaaaaaattggtagcgcatatactctttccatgaaaatatagaagactacctaaagttaacacttcacaagaatattatataaaatcagctgttgcaaaatggataggaaatggccagatttagagtactctttgattcaaaattgatatatctctggcaataggttacagctcaccttcgagccatctctagttatgttttttttttttcagagagggttaaataaccgcctttgattatcctggagtagcacaaccacatgtattgatgcgttagcataactatgatgtggtttctgaacagtttctgaaagccctgtgtctagtagtgattatgaattacttggAaaaaaaaggggaaaaactaaaacacatacacatgctacaagaaaacatataatctgctgtttttttaagaatggcaagtgttctgtctaagttcactaagctctacaaaagaagaaccacccttcatagtccttaaggtggcagtcaccttggaccagacaatgtgtctggagggagatttgcaacagagtcattgcgagcctcagaaacgccctgtcctccttgcaggcttgcctgcacaatcgtcttcctttgccatgcatcccagtgctccgcgataccgtcttctagcattgtcaccaccgttgacattctggggcggcttggagcggactcctgggtgcagagcagcgcaatctgcaccagcaacctcacctcctctcgcactccctgttccccaccattgtagatttccagtaagtttgggtcaatcagcacctccagcctgccctcttccagcagtttcttcacctgaataataaaaagaatatgaccctcttttatcactgagttcatgcttatgctctacaggaatagcactgtatcattttttttagagtaaatttcataaaactacacgttttatggtccaagttgcagaaaaccacatacactttgacacttagcacttaagtacatatattttggtagtgtagtttcacaaaaccacactatcaatgaatggattcacccgcgagatgacgtggctgtttcacataggacgaggacgtgtgatcctattatcagccatcgcacgaaattaataggatataccacgtcatcatcctagatggaacaaccacgtcatcacacgggtaaatccattcatcgatagtgtggttttgtgaaactaaattaccaaaatatatgtacttaagtgccaagtgtcaaaatgtgtgtggttttctgcaacttgaaccataaaacatgtagttttgtgaaatttactcttttttttaattcaattcaatatgaagtaagaattggtaaccagtttacagtgtatgttggtcgttccaagttaaagagatcaacagaatgtaaatatctgcataatttgcagtcaatattgttttttaacaaatgaaatcgcgcgaactactaatgattagggaggtagacgtgtttgatctattgaagaaagttggagtttcataaggattgcttcagtaatactagtatgaattaagtggttcattgaagacattagcatgttgtccctagaaataagaatcgaaactagagattatagtgcaaattataatgtcaaatgtaaagcatggcaggtagtcaatataactgacagaatataatagcttgagaaaagacatatcctgcaaaacaagggaagattcaacaaagcatgacttacccaatcatgcactctggcattttcttcatttgcaagaccaacaagatcaaatccccttttcccactaataagttcaaaaagcatgatcccatacccaaaaacatcagttttatctgaagttcttcctgcagtcaggtactccatgggaatgtgccccaatgtccccatcacaccggttacaacatgggaaactttgtaatccataattctagccagaccgaaatcaccaacaaccgcttcaagtttttcatccaacaaaatgttagcagctttgacatctcgatggataattttgggatcacatccttcatgcaagtaagagatccctcttgcagaccctaacgcgatttttcttcgtgttgaccagtcaagtggttgttgtgaatcagagcactctgtgtagttgacattgacatgaaacttattttaatgttgtaatcagatttttattgaaagtatcatctcactgcacatatttgagaaactaacacctctatactccatagttcaagtgcagaatattcagaaaatacctcgtaagcgtgtctcaaggcttttattctccatgtaaggatacacaagcagccgctcggtgggtgtcatacaatacccctggaggcgtaggagattttgatgcacggccatgctgatgatctcgacttccattaggaactgccgctctccagttccaattcgatcttcatttagtcttttaattgctatcaatgaaccatctaacaatcttcctttatagacctttccaaagcctcctctccctagcaaattagtttgactgaagttatctgttgccacttgcagttctctcagtgtgaaccttctaagctgacccagatgaacttctggagtttcttcttctgcatagagaaaaaggaatgccatcaaataacaaaggaaaccgtagagattaccaaaagttctcacgtagactgacctagtaggtcaaagaattggacatgtggtttacgccgccaccaccatgcgaacactacaataggagcagcaaacaacatggcagcacctgcagcagctccaccagcaattgttccaatgctggatgcactacttcttcctgagttaacaagtgccaaatacagaatcaactagagtaaccgccaattcgaaagaattaaagtggtgtttttccgacttatttgtttagataaatagcatcgaaatggatgatgagataagagcaaaaactagatgaattccaaatgcccaggctgctgcaacaacaggttatagacaattttggaacacttggcacatggcaactgggttgtgtatgggattctacacagaataatgaaacactgcagaaataaatgcagtttatcactccagagtaaggaattaacagacaacctgatggcaccgctgctcccgagttatttgatggcgaatcagaagaatttgcgaaagtacgtgggttattggagaaactgcaagacccaattacaaaatttcacaccagtcataatgcattgttgaatcgacataatcactagaggccaagcaaacctgattggggtgaagtgtgaaaatgaaccattggtcggtattattcccgacaagttgttatgtgacaagtccctgaatgaataattagcatatcagcgtctcaattgcggcatcttgcggcatggtgtagcagagaacttacagcacttcaagattttggattgttgtcaatgacatgggaattgcacctgacagactattgttgttcagacggctatccttgcacgcaaagtcaaagagcaggagtagtaaattctacattaatttttcacaggctatgtgatatcataagacataaaatttaacatcaaatacaaattatttaaagcagagatgagaatatttacaggttactgagcttcgataaatttcccagttcatacggtatttcaccggtgaaattgttcaagtagagatccaaagtttgcaagctagctaaccgcccaagctcgctaggtattttcccgctgatgctattgccataaagttccctgctgccaaaagatacattagtcacaaagaatcaccaaatctgagaatagaaaatgaccaacattccaatggaagactcatatagtgatattgtatagtatgcttttgcaagatgcatcgtcttatatgagatttttttataattcgtattttcattgttgttagataataaaacatgattaatattttatgcgtgacttatctttttaatttttttcatatttttttcaaataagacggatggtcaaacgttgggcacggaaaccagggtttgtctttttttttgggacggagggagtagaccagaaacaacattatttttactcatataataaacgagaggcaagatggaaaaagggcatatgcattgcatacgctacatcactgggcataacggaaacattcatagcaggcatgggtactactaccagtgctgtctgatcggtgaaaagatgcaacccaacccaatattctccatggaagaaatgagcaaataagcatcgacaaactcacaaggattgcaatgcttgcagctgccaaatgtcgggcttcaactcgccggacagcgactggttcccgagatccctgcgcgaagatgcaaattcattcagcagtagcaccagtgaattagtgatcaacactgcagcaggtagtacagtagatgcttacagcctgatgacctggttccccgggccacaggtgacatggaaccaggtgcaagggttgggcgcggacgcgtcccagctctggaacgccgcgttgctgccgacgaaccctgccatgaaaccctgcaaggcctccactgcacccAaaaaaaaaaagaaaaaatcgcaatcgatcgaacacgcgaggccgccgcagcgagcgagccagcgatttcatcgaacagggggtgggcgggagcgagggagcgcgtgcgtaccttcggaggtggggaggacggcggcgaggcggcacagcaggagggcgaggagcaggaggaggcgccgccgcgcggccatcgatcggcgtgcggctcggggaggaggaggaggaggaggaggaagcccgcggcgcgtggccgtggcgcgggggctcacttcccccttcctcccttgtgagaggctgtgccgtgtgggccgcggcggtggactggtggtggtcagggcgaggcgacacgggcgcggcggagaccggagacttcgcggtcgcggacgcgggggagtaaacggagtggggggccctggcatttggccctgcatggtgcgcgctgtcgccgtcgccgtcggcggttggtcggtcgctgagcggtggaggacgcctccttgatcggcttcaccgccagcgccgctggccgccggcggccggcggcttcccgtcgtcgcggcgccggcggcggtggccaaagtgcgaaacaagttttgcaaaaaaacttgggggctaatcgc More
CDS seq		atgcagggccaaatgccagggccccccactccgtttactcccccgcgtccgcgaccgcgaagtctccggtctccgccgcgcccgtgtcgcctcgccctgaccaccaccagtccaccgccgcggcccacacggcacagcctctcacaagggaggaagggggaagtgagcccccgcgccacggccacgcgccgcgggcttcctcctcctcctcctcctcctccccgagccgcacgccgatcgatggccgcgcggcggcgcctcctcctgctcctcgccctcctgctgtgccgcctcgccgccgtcctccccacctccgaagtggaggccttgcagggtttcatggcagggttcgtcggcagcaacgcggcgttccagagctgggacgcgtccgcgcccaacccttgcacctggttccatgtcacctgtggcccggggaaccaggtcatcaggctggatctcgggaaccagtcgctgtccggcgagttgaagcccgacatttggcagctgcaagcattgcaatccttggaactttatggcaatagcatcagcgggaaaatacctagcgagcttgggcggttagctagcttgcaaactttggatctctacttgaacaatttcaccggtgaaataccgtatgaactgggaaatttatcgaagctcagtaacctccgtctgaacaacaatagtctgtcaggtgcaattcccatgtcattgacaacaatccaaaatcttgaagtgctggacttgtcacataacaacttgtcgggaataataccgaccaatggttcattttcacacttcaccccaatcagtttctccaataacccacgtactttcgcaaattcttctgattcgccatcaaataactcgggagcagcggtgccatcaggaagaagtagtgcatccagcattggaacaattgctggtggagctgctgcaggtgctgccatgttgtttgctgctcctattgtagtgttcgcatggtggtggcggcgtaaaccacatgtccaattctttgacctactagaagaagaaactccagaagttcatctgggtcagcttagaaggttcacactgagagaactgcaagtggcaacagataacttcagtcaaactaatttgctagggagaggaggctttggaaaggtctataaaggaagattgttagatggttcattgatagcaattaaaagactaaatgaagatcgaattggaactggagagcggcagttcctaatggaagtcgagatcatcagcatggccgtgcatcaaaatctcctacgcctccaggggtattgtatgacacccaccgagcggctgcttgtgtatccttacatggagaataaaagccttgagacacgcttacgagagtgctctgattcacaacaaccacttgactggtcaacacgaagaaaaatcgcgttagggtctgcaagagggatctcttacttgcatgaaggatgtgatcccaaaattatccatcgagatgtcaaagctgctaacattttgttggatgaaaaacttgaagcggttgttggtgatttcggtctggctagaattatggattacaaagtttcccatgttgtaaccggtgtgatggggacattggggcacattcccatggagtacctgactgcaggaagaacttcagataaaactgatgtttttgggtatgggatcatgctttttgaacttattagtgggaaaaggggatttgatcttgttggtcttgcaaatgaagaaaatgccagagtgcatgattgggtgaagaaactgctggaagagggcaggctggaggtgctgattgacccaaacttactggaaatctacaatggtggggaacagggagtgcgagaggaggtgaggttgctggtgcagattgcgctgctctgcacccaggagtccgctccaagccgccccagaatgtcaacggtggtgacaatgctagaagacggtatcgcggagcactgggatgcatggcaaaggaagacgattgtgcaggcaagcctgcaaggaggacagggcgtttctgaggctcgcaatgactctgttgcaaatctccctccagacacattgtctggtccaaggtga More
Protein seq		MQGQMPGPPTPFTPPRPRPRSLRSPPRPCRLALTTTSPPPRPTRHSLSQGRKGEVSPRATATRRGLPPPPPPPPRAARRSMAARRRLLLLLALLLCRLAAVLPTSEVEALQGFMAGFVGSNAAFQSWDASAPNPCTWFHVTCGPGNQVIRLDLGNQSLSGELKPDIWQLQALQSLELYGNSISGKIPSELGRLASLQTLDLYLNNFTGEIPYELGNLSKLSNLRLNNNSLSGAIPMSLTTIQNLEVLDLSHNNLSGIIPTNGSFSHFTPISFSNNPRTFANSSDSPSNNSGAAVPSGRSSASSIGTIAGGAAAGAAMLFAAPIVVFAWWWRRKPHVQFFDLLEEETPEVHLGQLRRFTLRELQVATDNFSQTNLLGRGGFGKVYKGRLLDGSLIAIKRLNEDRIGTGERQFLMEVEIISMAVHQNLLRLQGYCMTPTERLLVYPYMENKSLETRLRECSDSQQPLDWSTRRKIALGSARGISYLHEGCDPKIIHRDVKAANILLDEKLEAVVGDFGLARIMDYKVSHVVTGVMGTLGHIPMEYLTAGRTSDKTDVFGYGIMLFELISGKRGFDLVGLANEENARVHDWVKKLLEEGRLEVLIDPNLLEIYNGGEQGVREEVRLLVQIALLCTQESAPSRPRMSTVVTMLEDGIAEHWDAWQRKTIVQASLQGGQGVSEARNDSVANLPPDTLSGPR
Function		LRR receptor kinase SERK2 [UniProtKB/Swiss-Prot:Q67X31]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLima_06g0008630	OsLima_06g0008630.01	Chr06	6652873	6658059	-	NAM
CDS seq	atgcagggccaaatgccagggccccccactccgtttactcccccgcgtccgcgaccgcgaagtctccggtctccgccgcgcccgtgtcgcctcgccctgaccaccaccagtccaccgccgcggcccacacggcacagcctctcacaagggaggaagggggaagtgagcccccgcgccacggccacgcgccgcgggcttcctcctcctcctcctcctcctccccgagccgcacgccgatcgatggccgcgcggcggcgcctcctcctgctcctcgccctcctgctgtgccgcctcgccgccgtcctccccacctccgaagtggaggccttgcagggtttcatggcagggttcgtcggcagcaacgcggcgttccagagctgggacgcgtccgcgcccaacccttgcacctggttccatgtcacctgtggcccggggaaccaggtcatcaggctggatctcgggaaccagtcgctgtccggcgagttgaagcccgacatttggcagctgcaagcattgcaatccttggaactttatggcaatagcatcagcgggaaaatacctagcgagcttgggcggttagctagcttgcaaactttggatctctacttgaacaatttcaccggtgaaataccgtatgaactgggaaatttatcgaagctcagtaacctccgtctgaacaacaatagtctgtcaggtgcaattcccatgtcattgacaacaatccaaaatcttgaagtgctggacttgtcacataacaacttgtcgggaataataccgaccaatggttcattttcacacttcaccccaatcagtttctccaataacccacgtactttcgcaaattcttctgattcgccatcaaataactcgggagcagcggtgccatcaggaagaagtagtgcatccagcattggaacaattgctggtggagctgctgcaggtgctgccatgttgtttgctgctcctattgtagtgttcgcatggtggtggcggcgtaaaccacatgtccaattctttgacctactagaagaagaaactccagaagttcatctgggtcagcttagaaggttcacactgagagaactgcaagtggcaacagataacttcagtcaaactaatttgctagggagaggaggctttggaaaggtctataaaggaagattgttagatggttcattgatagcaattaaaagactaaatgaagatcgaattggaactggagagcggcagttcctaatggaagtcgagatcatcagcatggccgtgcatcaaaatctcctacgcctccaggggtattgtatgacacccaccgagcggctgcttgtgtatccttacatggagaataaaagccttgagacacgcttacgagagtgctctgattcacaacaaccacttgactggtcaacacgaagaaaaatcgcgttagggtctgcaagagggatctcttacttgcatgaaggatgtgatcccaaaattatccatcgagatgtcaaagctgctaacattttgttggatgaaaaacttgaagcggttgttggtgatttcggtctggctagaattatggattacaaagtttcccatgttgtaaccggtgtgatggggacattggggcacattcccatggagtacctgactgcaggaagaacttcagataaaactgatgtttttgggtatgggatcatgctttttgaacttattagtgggaaaaggggatttgatcttgttggtcttgcaaatgaagaaaatgccagagtgcatgattgggtgaagaaactgctggaagagggcaggctggaggtgctgattgacccaaacttactggaaatctacaatggtggggaacagggagtgcgagaggaggtgaggttgctggtgcagattgcgctgctctgcacccaggagtccgctccaagccgccccagaatgtcaacggtggtgacaatgctagaagacggtatcgcggagcactgggatgcatggcaaaggaagacgattgtgcaggcaagcctgcaaggaggacagggcgtttctgaggctcgcaatgactctgttgcaaatctccctccagacacattgtctggtccaaggtga More
Protein seq	MQGQMPGPPTPFTPPRPRPRSLRSPPRPCRLALTTTSPPPRPTRHSLSQGRKGEVSPRATATRRGLPPPPPPPPRAARRSMAARRRLLLLLALLLCRLAAVLPTSEVEALQGFMAGFVGSNAAFQSWDASAPNPCTWFHVTCGPGNQVIRLDLGNQSLSGELKPDIWQLQALQSLELYGNSISGKIPSELGRLASLQTLDLYLNNFTGEIPYELGNLSKLSNLRLNNNSLSGAIPMSLTTIQNLEVLDLSHNNLSGIIPTNGSFSHFTPISFSNNPRTFANSSDSPSNNSGAAVPSGRSSASSIGTIAGGAAAGAAMLFAAPIVVFAWWWRRKPHVQFFDLLEEETPEVHLGQLRRFTLRELQVATDNFSQTNLLGRGGFGKVYKGRLLDGSLIAIKRLNEDRIGTGERQFLMEVEIISMAVHQNLLRLQGYCMTPTERLLVYPYMENKSLETRLRECSDSQQPLDWSTRRKIALGSARGISYLHEGCDPKIIHRDVKAANILLDEKLEAVVGDFGLARIMDYKVSHVVTGVMGTLGHIPMEYLTAGRTSDKTDVFGYGIMLFELISGKRGFDLVGLANEENARVHDWVKKLLEEGRLEVLIDPNLLEIYNGGEQGVREEVRLLVQIALLCTQESAPSRPRMSTVVTMLEDGIAEHWDAWQRKTIVQASLQGGQGVSEARNDSVANLPPDTLSGPR More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.034119	0.000000	None

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_06g0225300	RBH	1.902178	1.953369	0.000000
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os06g12120	RBH	1.304819	1.090796	0.000000
Nipponbare \| IRGSP 1.0 \| RAP-db	Os06g0225300	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_06g0008570	RBH	0.140813	2.260318	1.236377
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_06g0008430	RBH	0.175588	0.389076	0.229708
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_06g0008430	RBH	0.285060	0.806607	1.405533
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_06g0008560	RBH	0.025838	0.000000	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_06g0008540	RBH	2.257612	1.512650	2.354195
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_06G0107500	SBH	0.850344	1.8758585	0.6574555
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_06g0008160	RBH	0.000000	0.000000	0.155697
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_06G0108200	RBH	1.040684	3.244045	0.7989905
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_02g0035440	SBH	0.000000	0.102390	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_06g0008440	RBH	0.139005	0.000000	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_06g0008500	RBH	0.000000	7.005448	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_06g0008560	RBH	0.000000	0.000000	0.000000
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_06g0008350	RBH	0.000000	0.512819	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_06G008260	RBH	0.000000	0.000000	0.255835
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_06g0008550	RBH	0.599060	2.513669	0.768613

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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