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
OsMH63_03G0198600		OGI:03032000 \| 16/16			Minghui 63 \| MH63RS3 \| HZAU			Chr03:12274229-12277402		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		EULD1B, OsEULD1b, EULD1b, Osr40c1, r40c1
DNA seq		CAGTAGTAGGCCAGGGTAGTCGGTATAGAATGCAATACAATGAAAAGCAAACGCTAAATGTTTGTGCTAATCCCTCGCAAAATAAAAGTTTATCCCTAATCGTGGGTAGCTTGACGGCAATAATTGAATAAACAATCTTTCTTTGCGCATTGAATACAAGTACGGAGTAGTAGGCCGCAATGATCGCGGCGGCCACGGACACCGGCTCTCCTGCATCAATATGGTCATAGACAGGTGACAGGTGGTGAGGATATCAGCGAGTATCAAACCGGATCAGGCTATCCGCGTCGCGTGCTAGTTGCTACTGTCTCCCGCATTCCGACGACACACTCGTCACGCATGCATGAGGCGCTATACCATTGTTTTCTTTGTGAAGTTCTTTCAGTATGGACTCTTGTATTAATCCTATCCTATAGGCATTGTGAATTTGTTGTCAGGTGATTGATTTTCATTCTAAGAAGTGTAACAACTCCACGAAAATAAGGATAAGGTTCAGGTAAAATGCAGGCATCCATGGTCCCGGTAGTCCACATTTTCATGTCCACCATGTTCCAAGACATTTGCATGGTTCGCACTAAACAAGGGTGCATTTCGTCCAGCCAATCCTCAAAGATTCACCAGAGCACCTCCGAACGAGCAACGAGCATCAGACAGCAATCAAATCCTTAATCCTCCAAGACGGATTGAGATCAAATGCAGTTGCTATTGTAACTGCACAATAGCAACTGCACTCAATCATGGCCATCCGTTTTCAGATCCAGTGGCTCTAGATGACTGCTACAGTACAGGTATAATAGTACATCTCTGCTACAGTACCACTTCACATCCTGGCCTTCCATTCTAGATCATGTGATGCACATGTAACTGCTTAAGTTACAGTTACAATAACAACTGCACAGGATCTTGATCCTCAAAGACAAACCAAAGCCACTTCAAAGGATGCATATTGATCGAACTAGACACATGGCTGATAAATGATAAAGCAGGGTACTCATCAAAAGGTCTGAAACTCCGAACATCTGAAGAACAAGCTGCAAGGCCAAACGCCTTCGAGATAGTTCACGGAAACGACACCTCTCCTCTCACCCCCATTCTGTCACAAAAGCAGGACTCGAGAAAACGACTAAAAGCATTACACACGGACACAGACACAACACCATCACCACTGATCATCGCACACGACTTTTATTCTAGCAACAAAGGCAGAGGGCAGCAGGCCACGGGCGCAAACTCTCCCCACTCCACAGATCACGGCGACGACCAATGCAGCTCCAGCACACCGCATTTCTGCAAACATAAGCAACAACCAGATCGCATCATCATATCAGCCTTTTTCTTTTCGGCGAGATCATTAGTACTAGTAGCAAGTTTAACAATTCAAAAGATGGCAGGTAAGCTATCGGCCACTCTATGACGTCCTTGTTGCTGTCGGTTACGTGAAATCAATGTGCAAAAATTTCTACTCCTCATCAAGAAAGTTGATAATGGTGCTCGTAAACAAGTTGCAGCGAGCGATGTTGGGATGAGGCAGCTTACACCAGGGGACGATCTTCCAGCGCTGGTTGTCGCCCTCGCACCACTTCCAGAGCGCGACGGTGGTGCCGTCGCGGACGCCGCCGTGGTCCTTGTCGCCGTGGAGGGCGTCGAAGTTGAGGTAGATGTTGTTCACCATGCGGATGCAGCGGAAGCCGTGCCCGACGTCGCGGCTCTCCGTCCACAGCACCGACTCGTCCTGGTATCCGGGGTTGTACGGCACCAGCTTCACCTGTTTGATCGGATCAAACAAACAAGCAGCCATGGCATTTGTTCATCACTTTTAACAGGCAAATCAAGAAGGATAGATCGATGTACTAGTAGTGAGGATGGATGCTTACAGGGTGGCCTTCGCCTTGGGAGTGCTTGATGGCCTCGCCGGTGACCCTGTTGACGAGGGCGAAGGCGGGGTACCCTTCCTCGTCCTTGATGCTGTTGCTGTGCCTCATGTCCTTGATCCAGTGCTGGTACTCGTCGCGAGGGTTGGTGGGGGCGAGGCAGACGGAGCCGCCGCGGACGGTGACGCTGAAGCCCTCGTCGGCCTTGCAGAAGATGCGGACGGTGGGCTCGTTGCCGCCGCGGGGTGCGTTGGCGCTGCCGCCGGCGTAGGCCTCGTCGCCCCAGGGGAGGATCTTCCAGCACTGGTTGTCGCCCTTGGCCCACTCCCAGAGCACGATGGTGGTGCCGTCGTGCACGCCGCCGTGGTCCTTGTCGCCGTGGAACGCGTCGAAGTTGAGGCGGATGTTGTTCAGCATGCGAATGCAGCGGAAGCTCTTGCCCACGTCGCCGCTCTCCGTCCACAGCACCGACTCGTCCGGGTACTCCGGGTTGAACGGCGCCAGCTTCACCTGAAACCACCACCACCACGACGCACGCATCACACAAAGAGTGAGTCAGCAAAACCAACGCCGACGGCGACAGCGCCACGGATCAAGATGGCTCACGGCACGCGCGTACCGGGTGGCCCTGGCCGAGGGAGTGCTTGATGGCGAGGCCGGTGGCCTTGTTGACGAGCGCGAACGCCGGGTTGCCCTCCTCGTCCTTGATCTTGGCGCTGAAGCGCATGTCCTTGTACCAGTGCTGGTGCTCGTCGCGCGGGTTGGTCGGGGCGAGGACGACGTTCCCCTCGCGCACGGCGACGCAGTACCCCTCGTCGGCGCGGCAGAAGATCTTGAAGGTGGGCTGGTGCGCGCCGCCGCCGCCGCCGCCGTGGTGCTGGGGCGGCTGGTCTTGGCCATGGTGGCCGTGGTGCCCGAAGCCGAACATCTTGCTCGCTTCGGGAGGTTTTGGGGAGGGTTGTGTTGTGTGAGTGTGATGGATCAAACGTGAGACGAGGCGATGAGAAGCTGCGCCTCCTTGGGGGTCCCCATTTATAGAAGGGATTTACTGCCCATTTGTTACTGATTTACTGCTTGGAGTGAAGGAAAAAAAAAATCCCGGGTGAGACGAAACGCGTGGTGTGGTGTGGGGTGCCTCGTGTCCATGGCGTGTGGGGTCCAGACCGGAGGAACGTTCTGGATGCTGGGCGTGATTACGTGATTACGGATGAGCTGTGTTGATTAGCGACGATCGGTTGGTTAAATGGAACCCATCTGTACCAAGTGATGGCTCACGCCTCACACGCTTGACCTGATTACTGCC More
CDS seq		ATGTTCGGCTTCGGGCACCACGGCCACCATGGCCAAGACCAGCCGCCCCAGCACCACGGCGGCGGCGGCGGCGGCGCGCACCAGCCCACCTTCAAGATCTTCTGCCGCGCCGACGAGGGGTACTGCGTCGCCGTGCGCGAGGGGAACGTCGTCCTCGCCCCGACCAACCCGCGCGACGAGCACCAGCACTGGTACAAGGACATGCGCTTCAGCGCCAAGATCAAGGACGAGGAGGGCAACCCGGCGTTCGCGCTCGTCAACAAGGCCACCGGCCTCGCCATCAAGCACTCCCTCGGCCAGGGCCACCCGGTGAAGCTGGCGCCGTTCAACCCGGAGTACCCGGACGAGTCGGTGCTGTGGACGGAGAGCGGCGACGTGGGCAAGAGCTTCCGCTGCATTCGCATGCTGAACAACATCCGCCTCAACTTCGACGCGTTCCACGGCGACAAGGACCACGGCGGCGTGCACGACGGCACCACCATCGTGCTCTGGGAGTGGGCCAAGGGCGACAACCAGTGCTGGAAGATCCTCCCCTGGGGCGACGAGGCCTACGCCGGCGGCAGCGCCAACGCACCCCGCGGCGGCAACGAGCCCACCGTCCGCATCTTCTGCAAGGCCGACGAGGGCTTCAGCGTCACCGTCCGCGGCGGCTCCGTCTGCCTCGCCCCCACCAACCCTCGCGACGAGTACCAGCACTGGATCAAGGACATGAGGCACAGCAACAGCATCAAGGACGAGGAAGGGTACCCCGCCTTCGCCCTCGTCAACAGGGTCACCGGCGAGGCCATCAAGCACTCCCAAGGCGAAGGCCACCCTGTGAAGCTGGTGCCGTACAACCCCGGATACCAGGACGAGTCGGTGCTGTGGACGGAGAGCCGCGACGTCGGGCACGGCTTCCGCTGCATCCGCATGGTGAACAACATCTACCTCAACTTCGACGCCCTCCACGGCGACAAGGACCACGGCGGCGTCCGCGACGGCACCACCGTCGCGCTCTGGAAGTGGTGCGAGGGCGACAACCAGCGCTGGAAGATCGTCCCCTGGTAA More
Protein seq		MFGFGHHGHHGQDQPPQHHGGGGGGAHQPTFKIFCRADEGYCVAVREGNVVLAPTNPRDEHQHWYKDMRFSAKIKDEEGNPAFALVNKATGLAIKHSLGQGHPVKLAPFNPEYPDESVLWTESGDVGKSFRCIRMLNNIRLNFDAFHGDKDHGGVHDGTTIVLWEWAKGDNQCWKILPWGDEAYAGGSANAPRGGNEPTVRIFCKADEGFSVTVRGGSVCLAPTNPRDEYQHWIKDMRHSNSIKDEEGYPAFALVNRVTGEAIKHSQGEGHPVKLVPYNPGYQDESVLWTESRDVGHGFRCIRMVNNIYLNFDALHGDKDHGGVRDGTTVALWKWCEGDNQRWKIVPW
Function		Ricin B-like lectin R40C1 [UniProtKB/Swiss-Prot:Q10M12]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_03G0198600	OsMH63_03T0198600.1	Chr03	12274410	12277402	-	maker
CDS seq	ATGTTCGGCTTCGGGCACCACGGCCACCATGGCCAAGACCAGCCGCCCCAGCACCACGGCGGCGGCGGCGGCGGCGCGCACCAGCCCACCTTCAAGATCTTCTGCCGCGCCGACGAGGGGTACTGCGTCGCCGTGCGCGAGGGGAACGTCGTCCTCGCCCCGACCAACCCGCGCGACGAGCACCAGCACTGGTACAAGGACATGCGCTTCAGCGCCAAGATCAAGGACGAGGAGGGCAACCCGGCGTTCGCGCTCGTCAACAAGGCCACCGGCCTCGCCATCAAGCACTCCCTCGGCCAGGGCCACCCGGTGAAGCTGGCGCCGTTCAACCCGGAGTACCCGGACGAGTCGGTGCTGTGGACGGAGAGCGGCGACGTGGGCAAGAGCTTCCGCTGCATTCGCATGCTGAACAACATCCGCCTCAACTTCGACGCGTTCCACGGCGACAAGGACCACGGCGGCGTGCACGACGGCACCACCATCGTGCTCTGGGAGTGGGCCAAGGGCGACAACCAGTGCTGGAAGATCCTCCCCTGGGGCGACGAGGCCTACGCCGGCGGCAGCGCCAACGCACCCCGCGGCGGCAACGAGCCCACCGTCCGCATCTTCTGCAAGGCCGACGAGGGCTTCAGCGTCACCGTCCGCGGCGGCTCCGTCTGCCTCGCCCCCACCAACCCTCGCGACGAGTACCAGCACTGGATCAAGGACATGAGGCACAGCAACAGCATCAAGGACGAGGAAGGGTACCCCGCCTTCGCCCTCGTCAACAGGGTCACCGGCGAGGCCATCAAGCACTCCCAAGGCGAAGGCCACCCTGTGAAGCTGGTGCCGTACAACCCCGGATACCAGGACGAGTCGGTGCTGTGGACGGAGAGCCGCGACGTCGGGCACGGCTTCCGCTGCATCCGCATGGTGAACAACATCTACCTCAACTTCGACGCCCTCCACGGCGACAAGGACCACGGCGGCGTCCGCGACGGCACCACCGTCGCGCTCTGGAAGTGGTGCGAGGGCGACAACCAGCGCTGGAAGATCGTCCCCTGGTAA More
Protein seq	MFGFGHHGHHGQDQPPQHHGGGGGGAHQPTFKIFCRADEGYCVAVREGNVVLAPTNPRDEHQHWYKDMRFSAKIKDEEGNPAFALVNKATGLAIKHSLGQGHPVKLAPFNPEYPDESVLWTESGDVGKSFRCIRMLNNIRLNFDAFHGDKDHGGVHDGTTIVLWEWAKGDNQCWKILPWGDEAYAGGSANAPRGGNEPTVRIFCKADEGFSVTVRGGSVCLAPTNPRDEYQHWIKDMRHSNSIKDEEGYPAFALVNRVTGEAIKHSQGEGHPVKLVPYNPGYQDESVLWTESRDVGHGFRCIRMVNNIYLNFDALHGDKDHGGVRDGTTVALWKWCEGDNQRWKIVPW More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_03G0198600	OsMH63_03T0198600.2	Chr03	12274410	12277402	-	maker
CDS seq	ATGCGTGCGTCGTGGTGGTGGTGGTTTCAGGTGAAGCTGGCGCCGTTCAACCCGGAGTACCCGGACGAGTCGGTGCTGTGGACGGAGAGCGGCGACGTGGGCAAGAGCTTCCGCTGCATTCGCATGCTGAACAACATCCGCCTCAACTTCGACGCGTTCCACGGCGACAAGGACCACGGCGGCGTGCACGACGGCACCACCATCGTGCTCTGGGAGTGGGCCAAGGGCGACAACCAGTGCTGGAAGATCCTCCCCTGGGGCGACGAGGCCTACGCCGGCGGCAGCGCCAACGCACCCCGCGGCGGCAACGAGCCCACCGTCCGCATCTTCTGCAAGGCCGACGAGGGCTTCAGCGTCACCGTCCGCGGCGGCTCCGTCTGCCTCGCCCCCACCAACCCTCGCGACGAGTACCAGCACTGGATCAAGGACATGAGGCACAGCAACAGCATCAAGGACGAGGAAGGGTACCCCGCCTTCGCCCTCGTCAACAGGGTCACCGGCGAGGCCATCAAGCACTCCCAAGGCGAAGGCCACCCTGTGAAGCTGGTGCCGTACAACCCCGGATACCAGGACGAGTCGGTGCTGTGGACGGAGAGCCGCGACGTCGGGCACGGCTTCCGCTGCATCCGCATGGTGAACAACATCTACCTCAACTTCGACGCCCTCCACGGCGACAAGGACCACGGCGGCGTCCGCGACGGCACCACCGTCGCGCTCTGGAAGTGGTGCGAGGGCGACAACCAGCGCTGGAAGATCGTCCCCTGGTAA More
Protein seq	MRASWWWWFQVKLAPFNPEYPDESVLWTESGDVGKSFRCIRMLNNIRLNFDAFHGDKDHGGVHDGTTIVLWEWAKGDNQCWKILPWGDEAYAGGSANAPRGGNEPTVRIFCKADEGFSVTVRGGSVCLAPTNPRDEYQHWIKDMRHSNSIKDEEGYPAFALVNRVTGEAIKHSQGEGHPVKLVPYNPGYQDESVLWTESRDVGHGFRCIRMVNNIYLNFDALHGDKDHGGVRDGTTVALWKWCEGDNQRWKIVPW More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_03G0198600	OsMH63_03T0198600.3	Chr03	12274410	12277402	-	maker
CDS seq	ATGTTCGGCTTCGGGCACCACGGCCACCATGGCCAAGACCAGCCGCCCCAGCACCACGGCGGCGGCGGCGGCGGCGCGCACCAGCCCACCTTCAAGATCTTCTGCCGCGCCGACGAGGGGTACTGCGTCGCCGTGCGCGAGGGGAACGTCGTCCTCGCCCCGACCAACCCGCGCGACGAGCACCAGCACTGGTACAAGGACATGCGCTTCAGCGCCAAGATCAAGGACGAGGAGGGCAACCCGGCGTTCGCGCTCGTCAACAAGGCCACCGGCCTCGCCATCAAGCACTCCCTCGGCCAGGGCCACCCGGTGAAGCTGGCGCCGTTCAACCCGGAGTACCCGGACGAGTCGGTGCTGTGGACGGAGAGCGGCGACGTGGGCAAGAGCTTCCGCTGCATTCGCATGCTGAACAACATCCGCCTCAACTTCGACGCGTTCCACGGCGACAAGGACCACGGCGGCGTGCACGACGGCACCACCATCGTGCTCTGGGAGTGGGCCAAGGGCGACAACCAGTGCTGGAAGATCCTCCCCTGGGGCGACGAGGCCTACGCCGGCGGCAGCGCCAACGCACCCCGCGGCGGCAACGAGCCCACCGTCCGCATCTTCTGCAAGGCCGACGAGGGCTTCAGCGTCACCGTCCGCGGCGGCTCCGTCTGCCTCGCCCCCACCAACCCTCGCGACGAGTACCAGCACTGGATCAAGGACATGAGGCACAGCAACAGCATCAAGGACGAGGAAGGGTACCCCGCCTTCGCCCTCGTCAACAGGGTCACCGGCGAGGCCATCAAGCACTCCCAAGGCGAAGGCCACCCTGTAAGCATCCATCCTCACTACTAG More
Protein seq	MFGFGHHGHHGQDQPPQHHGGGGGGAHQPTFKIFCRADEGYCVAVREGNVVLAPTNPRDEHQHWYKDMRFSAKIKDEEGNPAFALVNKATGLAIKHSLGQGHPVKLAPFNPEYPDESVLWTESGDVGKSFRCIRMLNNIRLNFDAFHGDKDHGGVHDGTTIVLWEWAKGDNQCWKILPWGDEAYAGGSANAPRGGNEPTVRIFCKADEGFSVTVRGGSVCLAPTNPRDEYQHWIKDMRHSNSIKDEEGYPAFALVNRVTGEAIKHSQGEGHPVSIHPHY More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsMH63_03G0198600	OsMH63_03T0198600.4	Chr03	12274229	12277402	-	maker
CDS seq	ATGTTCGGCTTCGGGCACCACGGCCACCATGGCCAAGACCAGCCGCCCCAGCACCACGGCGGCGGCGGCGGCGGCGCGCACCAGCCCACCTTCAAGATCTTCTGCCGCGCCGACGAGGGGTACTGCGTCGCCGTGCGCGAGGGGAACGTCGTCCTCGCCCCGACCAACCCGCGCGACGAGCACCAGCACTGGTACAAGGACATGCGCTTCAGCGCCAAGATCAAGGACGAGGAGGGCAACCCGGCGTTCGCGCTCGTCAACAAGGCCACCGGCCTCGCCATCAAGCACTCCCTCGGCCAGGGCCACCCGGTGAAGCTGGCGCCGTTCAACCCGGAGTACCCGGACGAGTCGGTGCTGTGGACGGAGAGCGGCGACGTGGGCAAGAGCTTCCGCTGCATTCGCATGCTGAACAACATCCGCCTCAACTTCGACGCGTTCCACGGCGACAAGGACCACGGCGGCGTGCACGACGGCACCACCATCGTGCTCTGGGAGTGGGCCAAGGGCGACAACCAGTGCTGGAAGATCCTCCCCTGGGGCGACGAGGCCTACGCCGGCGGCAGCGCCAACGCACCCCGCGGCGGCAACGAGCCCACCGTCCGCATCTTCTGCAAGGCCGACGAGGGCTTCAGCGTCACCGTCCGCGGCGGCTCCGTCTGCCTCGCCCCCACCAACCCTCGCGACGAGTACCAGCACTGGATCAAGGACATGAGGCACAGCAACAGCATCAAGGACGAGGAAGGGTACCCCGCCTTCGCCCTCGTCAACAGGGTCACCGGCGAGGCCATCAAGCACTCCCAAGGCGAAGGCCACCCTGTAAGCATCCATCCTCACTACTAG More
Protein seq	MFGFGHHGHHGQDQPPQHHGGGGGGAHQPTFKIFCRADEGYCVAVREGNVVLAPTNPRDEHQHWYKDMRFSAKIKDEEGNPAFALVNKATGLAIKHSLGQGHPVKLAPFNPEYPDESVLWTESGDVGKSFRCIRMLNNIRLNFDAFHGDKDHGGVHDGTTIVLWEWAKGDNQCWKILPWGDEAYAGGSANAPRGGNEPTVRIFCKADEGFSVTVRGGSVCLAPTNPRDEYQHWIKDMRHSNSIKDEEGYPAFALVNRVTGEAIKHSQGEGHPVSIHPHY More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	69.333889	195.966255	400.3536685

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_03g0327600	RBH	2.623362	2.552539	35.018974
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os03g21040	RBH	1.859887	2.507835	7.914575
Nipponbare \| IRGSP 1.0 \| RAP-db	Os03g0327600	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_03g0016290	RBH	0.714725	253.304565	26.621361
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_03g0016130	RBH	0.000000	0.081079	0.331673
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_03g0016150	RBH	0.521822	153.460571	23.194981
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_03g0016140	RBH	0.159261	3.717697	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_03g0015940	RBH	16.350525	198.838058	51.585712
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_07G0472100	RBH	86.6748235	1.891014	3.626767
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_03g0015820	RBH	0.413839	10.740458	3.844976
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_03G0202700	RBH	62.403389	76.245964	219.537056
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_03g0016080	RBH	0.471720	3.081861	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_03g0016090	RBH	1.172508	150.462601	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_03g0016120	RBH	5.251525	380.871796	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_03g0016010	RBH	1.687189	15.750643	5.376459
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_03g0015940	RBH	0.0	87.756462	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_03G015890	RBH	0.388784	31.522108	23.143164
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_03g0015790	RBH	1.541218	118.677116	27.943039

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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