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_08g0014810		OGI:08056670 \| 16/16			LIMA \| Os127564RS1 \| Gramene(+IsoSeq)			Chr08:20014744-20020901		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		RPL27-2, rpl27-2, rpl27, mtRPL27a, S27, S27(t), S27(t), RPL27-1, rpl27-1, rpl27, mtRPL27b, S27, S27(t), S27(t), S28, -
DNA seq		atggctttttcatcagttttcaggagaggaaatgtcaaagaattgatctcaaatgtttcggtctacactagcgcagcaggtaatggctttggctttaggcagtctgagactcttgactgacttgagtctgtatttgtgctattctgaataaggtgcttggctgtttgaatgacaaaatatacctcattgcagagtcatctggaggattgagcttgatttttaagcgttgggccaccaaaaagacagctggatcaacaaaaaatggccgtgactctaaccctaagtatttgggtgttaaaaagtttggcggagaggtacaatcttgtgatctgtcatatgactttcatgttttttattgtttatgacagtacaaagtactttctttaatcacgtaaaagtaatcagacttcggagatttgtgtgtcccttctgatcccgtacctgaactcctgaagcaacttgtcatttttgttattagaacaaaaaggtgaaaaagatctaaactgttcctgaacatcagcatttgcatcatttttcagaaagtggagccaggaaacatcatcatccgccaaagaggaacccgcttccatcctgggaactacgttggcatggggaaggaccatactctcttctgtctgaaagaaggacatgtgcgattcgagcgcaacaagctgactggcaggaaatgggttcatgttgatcctgttgctgggcatgtgctccaccctgtctacgccagtgattcgacccctgcagctgaaatggagccattgtaatggctttacatggaatgaagtaacatatgttgctaacagctttcgtccttgccttgagagtgacttctctaaagaaacttattgcgattaagaggcttctgggttgaatttgcttgcaataaggaacctaaccatcatgttcagaacccttttgtttttggttcttgctgtggcttaaagttgtttgttttaagtatcctttgtgatttgtggcatgaaggttgacaaacctacatgatttatgaacacacagaaattctaaaaatgttgcttgggccgggaaagtcaagatgcttatttttcttcgaaatacctatggaataacctatgtcacgggaatttgagagaactactttgtaggagggttaatcctttggcttcaagagtttcacatgattgtttttcatatatgatttaaaatattctgcaatacgtaggattttcattcgaattgattcagtttctgcaaaagtcatccagaattcgtttggttcaaatgaagtatttctttgttgcaatacatactcttcccgcccaatcacccaatgatccaaaggaatatatgtgtgagcacttcctttattgaagtatagtatcggttgttttaattccaactcttcacattttggaatctaccctggaaatggctattttgaaagttttactactattttattgtcatgttataacattacatagagttaatttgtcggtcactccatcatctttttaataagtttttttaaaagctaatacttaattaactgtgcattactctatcgcttcattctgtatgtagtggaagtgttctctacccaaaatgatataagtacgtcttaaaacgccatagaaaaactggttatctttattacaaccctatctttttgcttttgcttatacttataagccaaaatttaaattttcaaccttaaatttggagttgattttggggtttttcatcaaagtttatttttagtttttgcttttagatcactaaggccttgttcgtttcttatgtaaggagagggttaaattgtgaatactcgtggcacgcttttaaaactgctaaacgatgcgtttcgtgcgaaaactttctatatgaaagttgctctaaaatattagattaatctattttttaagtttatataataattaaaactcaattaatcacatattattaccacatcgttttgcgtgaaacacttaatctttatcttcattttcatcttcaggagattcaaacaccacctataaacacatatataaaagttttgttcacaaattatttttcgtttgcaagtatgcaattttgcttaggctgtgtttagttcatcgtaaagtttggattttgattgaaattagagatgatgtgactgaaaagttacgtgtgtatgacaggttgatacgatgaaaaaggactgaagtttagatccaaactttggatctaaacacagccttaatccccaaataagccaaacgatgggggccttagtttcttcaacatgttaaaattaaaaaatatatttacacaactataaacataagcaaacacacacacaccacgttaaaattccgagagagagagaaccgatgcgaaaagagcgatcccctcccgcgtctttcaaacggagcccgcgccccggattcccctccattcccgggggtttccagattcccagcgagggaagaagcaagcaaaaaaaaaaaaaaaaaaaaaaaaaaacggaggcgagcgcgagcgctgcgcatcccagatggacggcggatcgggtgccagcgccacccgcctcgccgaatccgggccgtccattcctccgctcggtcgggcgccccgttaagcctgagccccacccaccccccacccccgaaccctcgccctcctcctcaccccgcgcaccccctccacctcgccgccgccgccgactcgctggggctcgccgccaccggtggtgggggggggagctcgacctcctcgccccacgcgcgcgtccggacgccgtcgttctgggcgcgggagagatccgtccgtcgccccccgctgggcttgcgccatcctctcgccgggtaagccctaggtttttttttttttttggtccgatcgattccgccgcgctcctagccgcgggtgaggcaggaatcggggtggttgcggggggctcgtcgtgcggtcgagggatttggttgttcctagtaggaggggttgtacttgttcatcccgtcgatccagtggaggcgcgtgggagatctcggttgggggtttccgtgggttgccgctcgcggtgcagcggcgggatgtggatggggatggggatggcgtggtgggccgtaggtgcgagcaaccctagacggattttttttttgtggccattttagggtttacgggaatggatttttttttttttaccgaacaagagatgtactctgaaaattgctgtcttttcgtagcgaggggcctataggatcattgaagccttagggacttagggtttgggctgcttgcagctgtatttctcatttgtaaacattagacttccgtgtctgctgtgggaggatgaaagaattgacttgggagctgagttctattaggttcactggttttgtggagtaatgtttggaaataatctgagggagtataaggctgctccatcgcagtgccacgtgtagcattcgttcgaatttgtcatttgtgtaatgtttcttagcagttactttttattttggaagttggttctcccaaaaaacttgtgtcctatctggtttatttgaaggtatcttaggacaacaagacgattagatgcaaaagttgaaagtaggggcgttaacataaaccttgttgggtgcagaatatggtaattttatacgtattaattgcgtacgtaccgtttccacaaaattgttcatgtagtaataaataactgccaaagaaagctgatgtgactccatgaatgaatgtatactacgctatatctgctgtattgattgctgtagcaatccattcgttttcagtattgtgttggtgcattgtttgcaaaagcaaatcatatttattaatttttcattattgagttgcagcttgcaaatgtgtatgtatgtacatactgtgagagaaagtaggcatgtctgaactctcaacatgattattgtcataagaaaaatgttatcgttgtttttctctctttttgggtaactgtttgtgtttatggttatcagttctatattataaatttgttcaggctggaattaggctgaccaaatccttgttttgaaattcgaattatattgatatatatcttgtacggtcattgcattttttattgttttgctttataactatatataggctggcttcattacgtactccctccgtcccaaaaaaacttaacctaggcaaggatgtgacatctcctagcacaataaatctggacagccctttgtccagattcgttgtactagaaaatgtcacatcccttcctaggtttagtttttttgggacggagggagtaaacttgtctatgttaaagtttggaatatccaaaggtcctcaacctagcatgtactattttcttgaccttaacatggaactatacatgacctttttttttcctattttactgaataagatgattgtttgtttgcggtttcctaaatgtacttaactgttggtattgttgtgaagatgtgatggaattagtattgtggtattacatctatggggtagacagctttttgggtttgcaggaatgaagtacataaatatctgtttggtgctgtggtacaacaatgtaaatagtttattgcagtgacaatgttgcactgttgcatgcatttttgttaggatcatggttgtctgttgccttgttatgccattaacaaatctagaataagtgaagcagcttaaagttatgttctcgtgctcttaagagcaaacatttaagaggtataatagcattctgtgttcaaactatattttagaacctttgcccttgcttaaatagttttatttataagagatgttgaggagcaaacattgcatatctttacacttcacatacgaatatactttgtgctttgcttcctggattactgcatctacttttttgttaaattcaatttcttgcataaaatggggataagttaactgagagcttcagtagactagtacatcacaacctaggtaattggaagaattagctactatgattctttgttgaaacttaggtttagtaaaatagagtaaccagataataggttctatcaaatggaaactggagaaggtacttccatagtcgtatcattgttaatttcacccgcagtataatattagtgctgaatatatgaaagtttgctttcgatgatttcaggtgatttgtgacaatcaagatggctttttcatcagttttcaggagaggaaatgtcaaagaattgatctcaaatgtttcggtctacactagcgcagcaggtaatggctttggctttaggcagtctgagactcttgactgacttgagtctgtatttgtgctattctgaataaggtgcttggctgtttgaatgacaaaatatacctcattgcagagtcatctggaggattgagcttgatttttaagcgttgggccaccaaaaagacagctggatcaacaaaaaatggccgtgactctaaccctaagtatttgggtgttaaaaagtttggcggagaggtacaatcttgtgatctgtcatatgactttcatgttttttattgtttatgacagtacaaagtactttctttaatcacgtaaaagtaatcagacttcggagatttgtgtgtcccttctgatcccgtacctgaactcctgaagcaacttgtcatttttgttattagaacaaaaaggtgaaaaagatctaaactgttcctgaacatcagcatttgcatcatttttcagaaagtggagccaggaaacatcatcatccgccaaagaggaacccgcttccatcctgggaactacgttggcatggggaaggaccatactctcttctgtctgaaagaaggacatgtgcgattcgagcgcaacaagctgactggcaggaaatgggttcatgttgatcctgttgctgggcatgtgctccaccctgtctacgccagtgattcgacccctgcagctgaaatggagccattgtaatggctttacatggaatgaagtaacatatgttgctaacagctttcgtccttgccttgagagtgacttctctaaagaaacttattgcgattaagaggcttctgggttgaatttgcttgcaataaggaacctaaccatcatgttcagaacccttttgtttttggttcttgctgtggcttaaagttgtttgttttaagtatcctttgtgatttgtggcatgaaggttgac More
CDS seq		atggctttttcatcagttttcaggagaggaaatgtcaaagaattgatctcaaatgtttcggtctacactagcgcagcagagtcatctggaggattgagcttgatttttaagcgttgggccaccaaaaagacagctggatcaacaaaaaatggccgtgactctaaccctaagtatttgggtgttaaaaagtttggcggagagaaagtggagccaggaaacatcatcatccgccaaagaggaacccgcttccatcctgggaactacgttggcatggggaaggaccatactctcttctgtctgaaagaaggacatgtgcgattcgagcgcaacaagctgactggcaggaaatgggttcatgttgatcctgttgctgggcatgtgctccaccctgtctacgccagtgattcgacccctgcagctgaaatggagccattgcgagcgcgagcgctgcgcatcccagatggacggcggatcgggtgccagcgccacccgcctcgccgaatccgggccgtccattcctccgctcggtcgggcgccccgttaagcctgagccccacccaccccccacccccgaaccctcgccctcctcctcaccccgcgcaccccctccacctcgccgccgccgccgactcgctggggctcgccgccaccggtggtgggggggggagctcgacctcctcgccccacgcgcgcgtccggacgccgtcgttctgggcgcgggagagatccgtccgtcgccccccgctgggcttgcgccatcctctcgccgggagaggaaatgtcaaagaattgatctcaaatgtttcggtctacactagcgcagcagagtcatctggaggattgagcttgatttttaagcgttgggccaccaaaaagacagctggatcaacaaaaaatggccgtgactctaaccctaagtatttgggtgttaaaaagtttggcggagagaaagtggagccaggaaacatcatcatccgccaaagaggaacccgcttccatcctgggaactacgttggcatggggaaggaccatactctcttctgtctgaaagaaggacatgtgcgattcgagcgcaacaagctgactggcaggaaatgggttcatgttgatcctgttgctgggcatgtgctccaccctgtctacgccagtgattcgacccctgcagctgaaatggagccattgtaa More
Protein seq		MAFSSVFRRGNVKELISNVSVYTSAAESSGGLSLIFKRWATKKTAGSTKNGRDSNPKYLGVKKFGGEKVEPGNIIIRQRGTRFHPGNYVGMGKDHTLFCLKEGHVRFERNKLTGRKWVHVDPVAGHVLHPVYASDSTPAAEMEPLRARALRIPDGRRIGCQRHPPRRIRAVHSSARSGAPLSLSPTHPPPPNPRPPPHPAHPLHLAAAADSLGLAATGGGGGSSTSSPHARVRTPSFWARERSVRRPPLGLRHPLAGRGNVKELISNVSVYTSAAESSGGLSLIFKRWATKKTAGSTKNGRDSNPKYLGVKKFGGEKVEPGNIIIRQRGTRFHPGNYVGMGKDHTLFCLKEGHVRFERNKLTGRKWVHVDPVAGHVLHPVYASDSTPAAEMEPL
Function		50S ribosomal protein L27 [UniProtKB/Swiss-Prot:Q2G9U8]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLima_08g0014810	OsLima_08g0014810.01	Chr08	20014744	20020901	+	NAM
CDS seq	atggctttttcatcagttttcaggagaggaaatgtcaaagaattgatctcaaatgtttcggtctacactagcgcagcagagtcatctggaggattgagcttgatttttaagcgttgggccaccaaaaagacagctggatcaacaaaaaatggccgtgactctaaccctaagtatttgggtgttaaaaagtttggcggagagaaagtggagccaggaaacatcatcatccgccaaagaggaacccgcttccatcctgggaactacgttggcatggggaaggaccatactctcttctgtctgaaagaaggacatgtgcgattcgagcgcaacaagctgactggcaggaaatgggttcatgttgatcctgttgctgggcatgtgctccaccctgtctacgccagtgattcgacccctgcagctgaaatggagccattgcgagcgcgagcgctgcgcatcccagatggacggcggatcgggtgccagcgccacccgcctcgccgaatccgggccgtccattcctccgctcggtcgggcgccccgttaagcctgagccccacccaccccccacccccgaaccctcgccctcctcctcaccccgcgcaccccctccacctcgccgccgccgccgactcgctggggctcgccgccaccggtggtgggggggggagctcgacctcctcgccccacgcgcgcgtccggacgccgtcgttctgggcgcgggagagatccgtccgtcgccccccgctgggcttgcgccatcctctcgccgggagaggaaatgtcaaagaattgatctcaaatgtttcggtctacactagcgcagcagagtcatctggaggattgagcttgatttttaagcgttgggccaccaaaaagacagctggatcaacaaaaaatggccgtgactctaaccctaagtatttgggtgttaaaaagtttggcggagagaaagtggagccaggaaacatcatcatccgccaaagaggaacccgcttccatcctgggaactacgttggcatggggaaggaccatactctcttctgtctgaaagaaggacatgtgcgattcgagcgcaacaagctgactggcaggaaatgggttcatgttgatcctgttgctgggcatgtgctccaccctgtctacgccagtgattcgacccctgcagctgaaatggagccattgtaa More
Protein seq	MAFSSVFRRGNVKELISNVSVYTSAAESSGGLSLIFKRWATKKTAGSTKNGRDSNPKYLGVKKFGGEKVEPGNIIIRQRGTRFHPGNYVGMGKDHTLFCLKEGHVRFERNKLTGRKWVHVDPVAGHVLHPVYASDSTPAAEMEPLRARALRIPDGRRIGCQRHPPRRIRAVHSSARSGAPLSLSPTHPPPPNPRPPPHPAHPLHLAAAADSLGLAATGGGGGSSTSSPHARVRTPSFWARERSVRRPPLGLRHPLAGRGNVKELISNVSVYTSAAESSGGLSLIFKRWATKKTAGSTKNGRDSNPKYLGVKKFGGEKVEPGNIIIRQRGTRFHPGNYVGMGKDHTLFCLKEGHVRFERNKLTGRKWVHVDPVAGHVLHPVYASDSTPAAEMEPL More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLima_08g0014810	OsLima_08g0014810.02	Chr08	20015485	20015826	+	IsoSeq
CDS seq	attcgacccctgcagctgaaatggagccattgtaatggctttacatggaatgaagtaacatatgttgctaacagctttcgtccttgccttgagagtgacttctctaaagaaacttattgc
Protein seq	IRPLQLKWSHCNGFTWNEVTYVANSFRPCLESDFSKETYC

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	1.191718	0.689922	None

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_08g0404300	RBH	1.585747	3.975688	14.732709
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os08g31228	RBH	0.709705	1.651780	2.354989
Nipponbare \| IRGSP 1.0 \| RAP-db	Os08g0404300	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_08g0015410	RBH	2.172698	52.778629	19.630312
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_08g0015280	RBH	0.371577	3.511472	5.113299
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_08g0015210	RBH	1.688152	56.927177	38.872955
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_08g0015510	RBH	0.000000	0.991391	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_08g0015310	RBH	23.485239	26.640648	21.998865
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_08G0305700	RBH	5.039104	13.0379445	17.6349825
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_08g0015340	RBH	0.430481	3.429292	3.021912
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_08G0327800	RBH	7.8966425	20.0572235	18.137907
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_04g0007850	RBH	0.0	0.000000	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_08g0014930	RBH	0.631786	29.117157	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_08g0014860	RBH	16.672585	77.881912	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_08g0015550	RBH	2.051788	4.198605	5.157159
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_08g0014970	RBH	0.769244	9.563818	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_08G015060	RBH	0.0	9.778468	2.243480
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_08g0015200	RBH	5.338657	63.968662	21.806637

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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