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
OsN22_01G025410		OGI:01077500 \| 16/16			N22 \| OsN22RS2 \| Gramene(+IsoSeq)			Chr01:24871709-24876515		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		SCP4, OsSCP4
DNA seq		ATGGCGTCGTTTCTTTCCCGCGCCGCCGCCGTCTCCCTCCTCGCCATCGTCCTCGTCCTGATTGCCGCCACGTCCACCTCCCCTGCGGCCACGGCCGCTCGGTTCCCGGAGGAGGCGCGCCCCACGAGGTCGGGGTACCTCAACGTCACGTCCACCAACTCACTCTACTTCGCCTTCTACGAGGCCACCGACCCGGTCACCACGCAGCCGGCCGCCGTGCCGCTCCTCGTTTGGCTCCAGGGCGGCCCCGGCTGCTCCTCCCTCATCGGCAGCTTCGCCGAGCTCGGCCCCTACCTCCTCCTCGACTCCACCTCCGCCCTCGCCCGCAACGACAACCGGTGGAACCGCCGCTTCGGCGTGATCTTCATCGACAACCCGCTCGGCGCCGGTTTCAGCGCGCCTGCCTCCGGCGACGACATCCCGACCGACGAGCGCACCATCGCCGCGCACCTCCTCGCGGCCCTGCAGTCGTTCATGGCGCTCGATCCGGCCTTCCGCGCGCGCCCGCTGTTCCTCACCGGGGAGAGCTACGCCGGCAAGTACATCCCCGCGGCCGCGTCGCACATCCTCGACGCCAACGCCAAGCTCACGGACGACCGTAGGGTGAACCTCCAGGGCATCGCCATCGGCAACGGCATGACGCACCCGGTGGCGCAGGTGACCGTGCACGCCGACCAGGCCTACTTCGCCGGGCTGATCAACGCCGAGCAGAAGGCCAAGGTCGAAGAAATGCAGGACAAGACGGTAAGCCTGATCAAATCCAAGAAGTGGGCCGCGGCGAGGAGGGAGAGGAACAGGATCATAGCGTTCCTCAAGAACGCCACCGGCGTCGCTACGCTGTTCAACTACGCGCGGGAGAAGGGGTACCCGACGCGGCCGCTCCGGGACTTCCTCAACACCGGCGAGGCGAAGGCGGCGCTGGGCGCGAGGAGCGACGTGGAGTGGGCGCGCTGCAGCGAGGCCGTGTCGGCGGCGCTCGCCGACGACATCATGAGGAGCGCCAGGGGCGACGTGGAGGCCGTCTTCCTGGCGCCGGATGGCGTCCGGGTGCTGCTGTTCCAGGGCGTGTTCGATCTGCACAGCGGGCCGGCGTCCGTGGAGGCGTGGGTGAGGGAGCTGGCGTGGCCTGGCCTGGGCGCGTTCCTCGCCGCGGAGCGCGCCGTGTGGCGGCTCGGGGACGAGCAGCTCGCCGGGTACGTGCAGAGGTCGGGGGCGCTCGCGAACGCGGTCATCGTCGGGGCCGGGCACATGGCGGCCGGCGACAACCGGCCGGCGGCGCAGGCGATGATCGAGGGATGGGTGTTGCAGACGGGGCCGTTCGACGGAAGCGGTCAACGAGTCGTTGGCTCCTTATTCTGACTTACGGGTGGGCTTGATTTTGACTGAAATAAATGCTTTTTGGTACTCGTACACTACTCTCTTCGATATGCTATTTTGACTAACAATATTTATAAAAGTAAGATATTTCAAATAAAAAGAGTTGTATTTTATGATAGCTTGTTTAACAATAAATCTACTAGTAACATCAATTTTATATGATTGATTTTTTTATTTTTTTATATTAATAGTTAAAGTTTAAAATGTTTGACTTGACACTATGCTCAAAATAACGGATAGAGTACTAGATTACATCGATTGATTTATCATTTTGAATACCAAGATAGTTTCTTTGAGTAATATTTATTAATATATATATTTATAAAAACTTAATAAAAATATAATTATGTGAAAGTATTTTCATAACAAATATATAAATTTTATTTTCACATATTAAATCTTAATATTTTTAATTTATTAATAAGATAAGATATCAAAATTTGACCACAAGCATTCTAGGATATCTATCCTTTTGATAATGGAGGTAGAACCTCCCTGACATAGGTTGCATGATCTATTTTGTATTAATAAAAATGTTATACGTATGTACATGTGTGGATGTCATGTAAATACAAAACTTAATACCTTCACGTATATACGTATATGTATAAACTTTATATCTTAACTAATTAAAAGATTCGTATTTTTCCAATCGTTACCTCCTTTTCACCCGTGATTCGTCCGTCGTTCCTCATAGGAGTCGAGTCCGATTCCCTGAAAAAAATCCCCCATCTTGATCCCCAAATAAATCAAACAATGAGACAACCAAAAACACTCATAGGATTCGAGTCCAATTCCTTAAAAAAAAATCCCCCAACTTGATCCCCAAATGAATCAAACAATGAGACAACCAAAAACAACATAAAGAGCAATTTTAATCCGAGTAGAGCTCATGAACTTGATCCCAATGTCCGATTCCATGAAAAAGAAACAAACTCGGGCAAAAAAAAAGGCGACCGGATCTGCCCTCGGCCGCCGCCGAATCCACCAGCGGCCGTCGCCGACTGCCGCTGGATCGCCCTCAGCCGCCGCCACCGCCGCCGGATCCACTCGCCGCCGCCACCGCTGCCGCCGGATCCACCCGACGCCACCACCGCCACCGAAGGCAGAAGAGAGGCGGCGGCCGTCACCGACGCCACCACCACCGACTGCCGCCGGATCCGCCCTTGGCCGCCGCCACCGCTGCCGCCGCCGCCACCGCCGGATCCACCCATCGGAAGTAGTGGAGGGAGCCGCCGTGGCCGCTCACGGTGGGGAAGGCCGCGGACGCCGCTAGCGACCAGAGAGAGGACGGGATCCAGTCACCGGTGGAGGATCCGCGCAAGAGGGGAGCAGGGGAGACGACGGGATGCGTGTGGGAGGGGAAGAAGTCGTCGGTTCCCTCCCCGCCCACCTGCCTCGGTCGCCCGTCTGCCGCCTCGCTTTGCTCCAACCGTGGCTCTCTCGCCGGCTGCCACACCGCTGCGTTGCAGTCTTACAGAGAGGGAGAACAGAAACGATGGCTGGGAGAGAAAGAACGAGAGAGTGATACAAGGTGAGAGGATAATGATCTCCATCCAGTCCACCGCCCACCACACAATTCTCGCCTCAAGAAACCTGCACGCGGCATCTGACTCCTAGCAGTTTTTCATATTTACCCCTAATAGCATATTTTATCATATACTTTAGTAAATACAAAATATTTCTAAAAATACCCCCAGATTAGTACTCACACATTGATATCCAGGACCTTGGCAGTTTTAATTTTACAAGACTGGACTGATGTACAAACTACCTTTTATAGCTCTGCATATTGAGCTGACCATATAAGTCATTAACCTCAAAAAATATATATGTGTTATATATTTTGTGATTAACATATTTTGTATATACCAATAAAAAAAATACATAAGGCTTCCAGGTATTTTTTTGACCGTCCTTTTTTTACGATTTTTCCACCGTTTTTTTTGTCGCTTAAGTCGTTTCTTTTACTTTTGCAAGCGGAACGGTGTGCGCAACCCTAGCGTGTATGCGTGTCGATCTAGGTTGAAGACGGCAGCCCCGGATAGGATTGGGAGTATCAGCTCCCTTATGGTACATGGAAAGACTGTTTTCAGGAGGTTAAAGACGGCAATCTATGCGAGTTGAACCTGCAGTTCCACTTGTGGGCTGCAGGCCGAGCGGAGGAAGGTGACGGACTAGGCGGGGCTGAAAAGAAATGATTTAATGGGCTTTTGAATTAAAACCAAGGAAGATGTAAAATTTATCGCAATCAATTTTACCCAGTGCAATGCACGTGCATCTTACTACAAAAGTTTTATTTTAGATCACATGTTAAGCTATGCTTTTACTTTGGACCGGACAACATTTTCTTTGTTTGCATCTTGAACCACCTTCGCTGTTCATCTCTTTCATCCCCACCCAAAACCCGGCTAGCTGGGAACTAGAGGGGACGCACACGCTACTGGTGCTGAGTGGCTCAAGCTCAGACATTGCGTGAGCTCCATCCATGTTGCACCATGGTCAAGCCTGGCTTGCTCGGTTTGGTTCCGTTCCATCATAAGTGGAGCCAATTTTCCTATCTCTTCTTATAGGTACCGGTTTATTATAAAAACATGGGGGGAGGGAAATGAAATCTTGGGTTAGGGTTAGGGTTTGGCTGTAGATATTTATATAGGTTAGGATAAATCTGGACTGTCCATTCGATTGGACGGCTCCGGCTTACCCTGCTCGGGCCGCCGAACTATTGGGCCTCCAAATAGGCCAACAAGTTTGCGCAATCAAAGGAGGAGTTAGAGGACGTAAATTAGATTTTATTTACGGGCTGGGACAGTAAAAGGACTGAAAATGGCCCATAGAGAAATTGTGGTTTTTATTTACATTTTTATTTAAATAAATGATGTTTGTGTTATAAATTAAGCTTCAAAAATTCCAATTAAAATTCAAAGAGCGTTATTAATCATGATTAATTCAATAAAAATTAAATCCAACCATATCATATTATTTCACGGCCTGCGGTGGGAAAATACACAGCTGCTGTCGGTGGGAGAGAAGGGGCATTGTTTATGTCCAGAACTATCTCCTATAACTCCCATAGAACTGTAAAATAACTATAATCATTATTTTAACATTAGTTTTTTTTTCTGTTGCAACGCACTATTGAATAATATTTTGAGAACGGTTAAAAACACACTATTTTTAGTTTTTTTATTGGACAAATATTTTTAGTTTTAATACACCGTATCGAAGCACGGGCATTTTGCTAGTACTTATAAATATATTTATAAAGTTTATACGTGTAGCGACAACGGATTGATCACCCGTATCCGGTCAGCCGCGCATCAGCGCAGGCGTATCTTGTGCGGTCAGTTGATGCTGGTAGCTAGGCATGCACTTGCATCTGATCCTTGCGTGCAGGTCAAAGGGGCCTACAATTCGAATTGAATGGTAG More
CDS seq		ATGGCGTCGTTTCTTTCCCGCGCCGCCGCCGTCTCCCTCCTCGCCATCGTCCTCGTCCTGATTGCCGCCACGTCCACCTCCCCTGCGGCCACGGCCGCTCGGTTCCCGGAGGAGGCGCGCCCCACGAGGTCGGGGTACCTCAACGTCACGTCCACCAACTCACTCTACTTCGCCTTCTACGAGGCCACCGACCCGGTCACCACGCAGCCGGCCGCCGTGCCGCTCCTCGTTTGGCTCCAGGGCGGCCCCGGCTGCTCCTCCCTCATCGGCAGCTTCGCCGAGCTCGGCCCCTACCTCCTCCTCGACTCCACCTCCGCCCTCGCCCGCAACGACAACCGGTGGAACCGCCGCTTCGGCGTGATCTTCATCGACAACCCGCTCGGCGCCGGTTTCAGCGCGCCTGCCTCCGGCGACGACATCCCGACCGACGAGCGCACCATCGCCGCGCACCTCCTCGCGGCCCTGCAGTCGTTCATGGCGCTCGATCCGGCCTTCCGCGCGCGCCCGCTGTTCCTCACCGGGGAGAGCTACGCCGGCAAGTACATCCCCGCGGCCGCGTCGCACATCCTCGACGCCAACGCCAAGCTCACGGACGACCGTAGGGTGAACCTCCAGGGCATCGCCATCGGCAACGGCATGACGCACCCGGTGGCGCAGGTGACCGTGCACGCCGACCAGGCCTACTTCGCCGGGCTGATCAACGCCGAGCAGAAGGCCAAGGTCGAAGAAATGCAGGACAAGACGGTAAGCCTGATCAAATCCAAGAAGTGGGCCGCGGCGAGGAGGGAGAGGAACAGGATCATAGCGTTCCTCAAGAACGCCACCGGCGTCGCTACGCTGTTCAACTACGCGCGGGAGAAGGGGTACCCGACGCGGCCGCTCCGGGACTTCCTCAACACCGGCGAGGCGAAGGCGGCGCTGGGCGCGAGGAGCGACGTGGAGTGGGCGCGCTGCAGCGAGGCCGTGTCGGCGGCGCTCGCCGACGACATCATGAGGAGCGCCAGGGGCGACGTGGAGGCCGTCTTCCTGGCGCCGGATGGCGTCCGGGTGCTGCTGTTCCAGGGCGTGTTCGATCTGCACAGCGGGCCGGCGTCCGTGGAGGCGTGGGTGAGGGAGCTGGCGTGGCCTGGCCTGGGCGCGTTCCTCGCCGCGGAGCGCGCCGTGTGGCGGCTCGGGGACGAGCAGCTCGCCGGGTCAAAGGGGCCTACAATTCGAATTGAATGGTAG More
Protein seq		MASFLSRAAAVSLLAIVLVLIAATSTSPAATAARFPEEARPTRSGYLNVTSTNSLYFAFYEATDPVTTQPAAVPLLVWLQGGPGCSSLIGSFAELGPYLLLDSTSALARNDNRWNRRFGVIFIDNPLGAGFSAPASGDDIPTDERTIAAHLLAALQSFMALDPAFRARPLFLTGESYAGKYIPAAASHILDANAKLTDDRRVNLQGIAIGNGMTHPVAQVTVHADQAYFAGLINAEQKAKVEEMQDKTVSLIKSKKWAAARRERNRIIAFLKNATGVATLFNYAREKGYPTRPLRDFLNTGEAKAALGARSDVEWARCSEAVSAALADDIMRSARGDVEAVFLAPDGVRVLLFQGVFDLHSGPASVEAWVRELAWPGLGAFLAAERAVWRLGDEQLAGSKGPTIRIEW
Function		Serine carboxypeptidase-like 50 [UniProtKB/Swiss-Prot:Q9M9Q6]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsN22_01G025410	OsN22_01G025410_01	Chr01	24871709	24876515	+	NAM
CDS seq	ATGGCGTCGTTTCTTTCCCGCGCCGCCGCCGTCTCCCTCCTCGCCATCGTCCTCGTCCTGATTGCCGCCACGTCCACCTCCCCTGCGGCCACGGCCGCTCGGTTCCCGGAGGAGGCGCGCCCCACGAGGTCGGGGTACCTCAACGTCACGTCCACCAACTCACTCTACTTCGCCTTCTACGAGGCCACCGACCCGGTCACCACGCAGCCGGCCGCCGTGCCGCTCCTCGTTTGGCTCCAGGGCGGCCCCGGCTGCTCCTCCCTCATCGGCAGCTTCGCCGAGCTCGGCCCCTACCTCCTCCTCGACTCCACCTCCGCCCTCGCCCGCAACGACAACCGGTGGAACCGCCGCTTCGGCGTGATCTTCATCGACAACCCGCTCGGCGCCGGTTTCAGCGCGCCTGCCTCCGGCGACGACATCCCGACCGACGAGCGCACCATCGCCGCGCACCTCCTCGCGGCCCTGCAGTCGTTCATGGCGCTCGATCCGGCCTTCCGCGCGCGCCCGCTGTTCCTCACCGGGGAGAGCTACGCCGGCAAGTACATCCCCGCGGCCGCGTCGCACATCCTCGACGCCAACGCCAAGCTCACGGACGACCGTAGGGTGAACCTCCAGGGCATCGCCATCGGCAACGGCATGACGCACCCGGTGGCGCAGGTGACCGTGCACGCCGACCAGGCCTACTTCGCCGGGCTGATCAACGCCGAGCAGAAGGCCAAGGTCGAAGAAATGCAGGACAAGACGGTAAGCCTGATCAAATCCAAGAAGTGGGCCGCGGCGAGGAGGGAGAGGAACAGGATCATAGCGTTCCTCAAGAACGCCACCGGCGTCGCTACGCTGTTCAACTACGCGCGGGAGAAGGGGTACCCGACGCGGCCGCTCCGGGACTTCCTCAACACCGGCGAGGCGAAGGCGGCGCTGGGCGCGAGGAGCGACGTGGAGTGGGCGCGCTGCAGCGAGGCCGTGTCGGCGGCGCTCGCCGACGACATCATGAGGAGCGCCAGGGGCGACGTGGAGGCCGTCTTCCTGGCGCCGGATGGCGTCCGGGTGCTGCTGTTCCAGGGCGTGTTCGATCTGCACAGCGGGCCGGCGTCCGTGGAGGCGTGGGTGAGGGAGCTGGCGTGGCCTGGCCTGGGCGCGTTCCTCGCCGCGGAGCGCGCCGTGTGGCGGCTCGGGGACGAGCAGCTCGCCGGGTCAAAGGGGCCTACAATTCGAATTGAATGGTAG More
Protein seq	MASFLSRAAAVSLLAIVLVLIAATSTSPAATAARFPEEARPTRSGYLNVTSTNSLYFAFYEATDPVTTQPAAVPLLVWLQGGPGCSSLIGSFAELGPYLLLDSTSALARNDNRWNRRFGVIFIDNPLGAGFSAPASGDDIPTDERTIAAHLLAALQSFMALDPAFRARPLFLTGESYAGKYIPAAASHILDANAKLTDDRRVNLQGIAIGNGMTHPVAQVTVHADQAYFAGLINAEQKAKVEEMQDKTVSLIKSKKWAAARRERNRIIAFLKNATGVATLFNYAREKGYPTRPLRDFLNTGEAKAALGARSDVEWARCSEAVSAALADDIMRSARGDVEAVFLAPDGVRVLLFQGVFDLHSGPASVEAWVRELAWPGLGAFLAAERAVWRLGDEQLAGSKGPTIRIEW More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.0	0.724881	0.0

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_01g0629600	RBH	1.769821	1.703348	0.412098
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os01g43890	RBH	1.104245	0.978922	0.074350
Nipponbare \| IRGSP 1.0 \| RAP-db	Os01g0629600	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_01g0026090	RBH	0.000000	0.000000	0.155045
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_01g0025720	RBH	0.000000	0.0	0.000000
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_01g0026050	RBH	0.508530	0.0	0.654091
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_01g0025380	RBH	0.082934	0.0	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_01g0025100	RBH	2.571496	0.342988	0.699613
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_01G0421900	RBH	1.29408	5.594252	2.1964515
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_01g0024770	RBH	0.110732	0.0	0.135516
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_01G0410600	RBH	1.481479	5.659169	2.2418545
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_01g0025060	RBH	0.0	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_01g0025020	RBH	0.228348	4.455811	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_01g0025280	RBH	0.0	0.0	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_01g0025290	RBH	0.000000	0.0	0.140705
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_01g0025160	RBH	0.000000	1.130130	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_05G027700	RBH	0.272999	0.516808	0.617870
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_01g0025180	RBH	0.000000	0.000000	0.000000

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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