Genomic Resources - Ricebean Portal

Integrated genomic strategy for accelerating domestication of
ricebean (Vigna umbellata) under genetic enhancement of minor pulse

Gene Details:

Gene ID	Chr. No.	Start Position	End Position	Function	View on
Vu_05752	LG1	85817706	85819801	hypothetical protein	Map

Annotations

category		relationship type		keyword

SNP	Position	Effect	Amino acid change
T/A	85817709	missense_variant	p.Trp2Arg
G/T	85817710	missense_variant	p.Trp2Leu
C/A	85817721	missense_variant	p.Pro6Thr
C/T	85817724	synonymous_variant	p.Leu7Leu
T/C	85817735	synonymous_variant	p.Gly10Gly
G/T	85817736	missense_variant	p.Ala11Ser
C/T	85817740	missense_variant	p.Ser12Leu
A/G	85817741	synonymous_variant	p.Ser12Ser
C/A	85817743	missense_variant	p.Ala13Asp
T/C	85817746	missense_variant	p.Ile14Thr
G/A	85817758	missense_variant	p.Ser18Asn
A/G	85817765	synonymous_variant	p.Glu20Glu
T/C	85817769	missense_variant	p.Ser22Pro
C/T	85817771	synonymous_variant	p.Ser22Ser
A/G	85817781	missense_variant	p.Thr26Ala
G/T	85817792	missense_variant	p.Glu29Asp
T/A	85817794	missense_variant	p.Ile30Asn
A/G	85817798	synonymous_variant	p.Arg31Arg
G/A	85817801	synonymous_variant	p.Lys32Lys
A/T	85817826	missense_variant	p.Ile41Phe
C/A	85817834	missense_variant	p.Ser43Arg
C/A	85817847	missense_variant	p.Leu48Ile
G/T	85817854	missense_variant	p.Cys50Phe
C/A	85817857	missense_variant	p.Thr51Asn
G/C	85817859	missense_variant	p.Asp52His
G/C	85817862	missense_variant	p.Gly53Arg
A/C	85817868	missense_variant	p.Ile55Leu
T/C	85817872	missense_variant	p.Leu56Pro
A/G	85817888	synonymous_variant	p.Leu61Leu
G/A	85817892	missense_variant	p.Val63Met
G/T	85817894	synonymous_variant	p.Val63Val
G/A	85817904	missense_variant	p.Glu67Lys
T/A	85817924	synonymous_variant	p.Thr73Thr
A/G	85817927	synonymous_variant	p.Gly74Gly
A/G	85817940	missense_variant	p.Asn79Asp
A/G	85817968	missense_variant	p.Asp88Gly
G/C	85817983	missense_variant	p.Gly93Ala
G/T	85817996	missense_variant	p.Glu97Asp
C/T	85817999	synonymous_variant	p.Asn98Asn
C/T	85818002	synonymous_variant	p.Thr99Thr
A/G	85818050	missense_variant	p.Ile115Met
T/C	85818051	missense_variant	p.Phe116Leu
A/C	85818054	missense_variant	p.Asn117His
C/A	85818058	missense_variant	p.Pro118Gln
G/A	85818060	missense_variant	p.Glu119Lys
G/A,*	85818063	missense_variant	p.Gly120Ser
T/A,*	85818065	synonymous_variant	p.Gly120Gly
T/A,*	85818066	missense_variant	p.Ser121Thr
C/T	85818067	missense_variant	p.Ser121Phe
A/G	85818074	synonymous_variant	p.Gly123Gly
T/G	85818117	intron_variant
T/C	85818120	intron_variant
A/G	85818123	intron_variant
A/G	85818129	intron_variant
A/T	85818137	intron_variant
T/C	85818142	intron_variant
T/C	85818145	intron_variant
C/T	85818155	intron_variant
T/A	85818156	intron_variant
T/C	85818212	intron_variant
A/T	85818229	intron_variant
A/T	85818338	intron_variant
T/C	85818350	intron_variant
A/C	85818351	intron_variant
T/C	85818390	synonymous_variant	p.Asn132Asn
T/C	85818395	missense_variant	p.Leu134Ser
T/C	85818422	missense_variant	p.Val143Ala
G/T	85818451	missense_variant	p.Asp153Tyr
T/C	85818453	synonymous_variant	p.Asp153Asp
C/G	85818454	missense_variant	p.Gln154Glu
C/T	85818460	missense_variant	p.Leu156Phe
T/A	85818470	missense_variant	p.Phe159Tyr
T/C	85818481	missense_variant	p.Ser163Pro
G/C	85818486	missense_variant	p.Lys164Asn
A/G	85818490	missense_variant	p.Ser166Gly
T/A	85818504	missense_variant	p.His170Gln
A/G	85818511	missense_variant	p.Ile173Val
T/A,C	85818512	missense_variant&splice_region_variant	p.Ile173Lys
G/A	85818525	intron_variant
A/T	85818561	intron_variant
T/A	85818577	intron_variant
T/A	85818581	intron_variant
T/C	85818649	missense_variant	p.Trp189Arg
G/A	85818653	missense_variant	p.Cys190Tyr
C/T	85818658	missense_variant	p.Pro192Ser
G/A	85818694	missense_variant	p.Gly204Ser
T/C	85818696	synonymous_variant	p.Gly204Gly
A/T	85818716	missense_variant	p.Asp211Val
C/T	85818720	synonymous_variant	p.Leu212Leu
T/G	85818730	missense_variant	p.Ser216Ala
C/G	85818733	missense_variant	p.Arg217Gly
T/C	85818771	intron_variant
G/A	85818775	intron_variant
G/A	85818780	intron_variant
T/C	85818853	intron_variant
C/G	85818862	intron_variant
T/G	85818911	intron_variant
A/G	85818946	upstream_gene_variant
T/C	85818948	upstream_gene_variant
T/C	85818956	upstream_gene_variant
G/A	85818958	upstream_gene_variant
A/C	85818965	upstream_gene_variant
C/A	85818971	upstream_gene_variant
A/T	85818973	upstream_gene_variant
T/C	85818975	upstream_gene_variant
T/C	85818989	upstream_gene_variant
T/C	85819003	upstream_gene_variant
G/A	85819013	upstream_gene_variant
C/T	85819016	upstream_gene_variant
A/G	85819018	upstream_gene_variant
C/T	85819023	upstream_gene_variant
T/C	85819035	upstream_gene_variant
C/T	85819043	upstream_gene_variant
C/T	85819074	missense_variant	p.Ala222Val
C/A	85819079	missense_variant	p.Leu224Ile
A/G	85819082	missense_variant	p.Thr225Ala
T/A	85819090	missense_variant	p.Phe227Leu
T/G	85819094	missense_variant	p.Leu229Val
G/C	85819096	missense_variant	p.Leu229Phe
A/C	85819101	missense_variant	p.Lys231Thr
G/A	85819107	missense_variant	p.Gly233Glu
C/A	85819113	missense_variant	p.Ser235Tyr
T/G	85819114	synonymous_variant	p.Ser235Ser
G/A	85819140	missense_variant	p.Ser244Asn
T/G	85819141	missense_variant	p.Ser244Arg
A/G	85819142	missense_variant	p.Ile245Val
A/G	85819145	missense_variant	p.Ile246Val
T/C,G	85819146	missense_variant	p.Ile246Thr
T/G	85819147	missense_variant	p.Ile246Met
T/C,A	85819154	missense_variant	p.Tyr249Asn
A/T,C	85819155	missense_variant	p.Tyr249Ser
G/A	85819163	missense_variant	p.Ala252Thr
C/T	85819164	missense_variant	p.Ala252Val
A/T	85819178	missense_variant	p.Ile257Phe
C/G	85819180	missense_variant	p.Ile257Met
G/A	85819181	missense_variant	p.Ala258Thr
C/T	85819182	missense_variant	p.Ala258Val
G/T	85819200	upstream_gene_variant
C/T	85819201	upstream_gene_variant
A/G	85819208	upstream_gene_variant
G/A	85819209	upstream_gene_variant
T/A	85819220	upstream_gene_variant
T/A	85819224	upstream_gene_variant
T/G	85819226	upstream_gene_variant
T/C	85819252	upstream_gene_variant
C/T	85819274	upstream_gene_variant
T/A	85819315	upstream_gene_variant
G/A	85819322	upstream_gene_variant
A/G	85819326	upstream_gene_variant
A/T	85819337	upstream_gene_variant
C/A	85819344	upstream_gene_variant
T/C	85819354	upstream_gene_variant
A/G	85819358	upstream_gene_variant
T/A	85819368	upstream_gene_variant
G/A	85819392	upstream_gene_variant
G/C	85819395	upstream_gene_variant
G/A	85819404	upstream_gene_variant
G/A	85819424	upstream_gene_variant
C/G	85819446	upstream_gene_variant
A/T	85819487	splice_region_variant&intron_variant
G/A,C	85819493	missense_variant&splice_region_variant	p.Gly260Glu
G/A	85819509	synonymous_variant	p.Glu265Glu
G/C	85819521	missense_variant	p.Trp269Cys
G/T	85819532	missense_variant	p.Ser273Ile
G/C,T	85819549	missense_variant	p.Asp279His
G/A	85819560	synonymous_variant	p.Glu282Glu
G/A	85819562	missense_variant	p.Gly283Asp
C/T	85819563	synonymous_variant	p.Gly283Gly
T/A	85819566	synonymous_variant	p.Thr284Thr
C/T,*	85819570	missense_variant	p.His286Tyr
C/G,A	85819572	missense_variant	p.His286Gln
G/T	85819578	missense_variant	p.Lys288Asn
C/T	85819580	missense_variant	p.Ala289Val
C/G	85819584	missense_variant	p.Asn290Lys
A/G	85819585	missense_variant	p.Arg291Gly
G/C	85819594	missense_variant	p.Glu294Gln
C/G	85819597	missense_variant	p.Pro295Ala
C/G	85819611	missense_variant	p.Asp299Glu
C/G	85819612	missense_variant	p.Gln300Glu
T/C	85819616	missense_variant	p.Val301Ala
C/G	85819630	missense_variant	p.Gln306Glu
A/G	85819631	missense_variant	p.Gln306Arg
G/*,A	85819635	synonymous_variant	p.Lys307Lys
A/C	85819637	missense_variant	p.Lys308Thr
T/G,A	85819658	missense_variant	p.Phe315Tyr
C/G	85819659	missense_variant	p.Phe315Leu
C/A	85819689	missense_variant	p.Ser325Arg
T/C	85819695	synonymous_variant	p.Ile327Ile
T/A	85819728	missense_variant	p.Ser338Arg
C/G	85819730	missense_variant	p.Ala339Gly
T/G,A	85819739	stop_gained	p.Leu342*
C/G,*	85819766	missense_variant	p.Ser351Cys
T/C	85819768	stop_lost	p.Ter352Argext*?
C/T	85819782	synonymous_variant	p.Ser356Ser
T/C	85819783	missense_variant	p.Tyr357His
T/G	85819798	missense_variant	p.Leu362Val

View accession wise SNPs

Sequence Details:

Protein Sequence:
>Vu_05752.1

MWGSVPLFSGASAIHGSSVEFSETTTTTEIRKSQFSVRETIYSDCSPLPCTDGQILKWPELKVFSFEELKSATGNFKSNRLVGEGGFDRVYKGWLDENTLTPAKPGSGVEVAIKIFNPEGSQGFAQWQSEVNVLGRLSHPNVVRLLGYCWDEDQFLLVFEFMSKGSLSGHLFIRNHEPLSWNTRLKIIIGAARGLAFLHANENKVIFRDFKTSNILLDGNYNAKLTDFGLAKLGPSEGQSHVNTSIIGTYGYAAPEYIATGDLYVKSDVYGFGVVLLEILTGMRALDTRRPTGQQNLVEWTKSCLSSKRKLKTIMDSKIEGQYSPKAALQAAQLALKCLVHDPYQRPSMEEVLEGLEAIEDNH*

CDS Sequence:
>Vu_05752.1

Promoter Sequence:
>Vu_05752::LG1:85815706-85817706(+)

CGCGAGTTTTCCAGAGAGGTTCGCGCCTGGGCGCGAAAGAGAGGGCGCTGGGCGCGACTTTCCCAGAGAGGTTCGCGCCCGGGCGCGACTTAGAGGGTGTCGGGCGCGACTTTTGCTGATGTGTCAGATCTAGCTTATTTATCCCTAAAACGCGAAGGGGTTTGGATCTTTGGTTGCCCAAACACGATTTCTCTCATTTGGAGCTCTTGGAGGCGAGCTAGGAGCTGTGGGAACAGTCCTTCTTCACCCTTGGGTCTTCTTCCTTCTTCCATTTCCACCATTGTTGTAAGCTTGAGCTCTCCATTCATGGAGAGTTAGTTTCATTATTGTTGGGGGATTGATGTAGCCACTAAACTCTTATGTAAACTATTGTGTTTTGAATGAATATATGCCTCTTTCATTGATTGTTAGTGTTTAATTCCTTCTCTTAATGCCTGTTGTGAAGTTGCTATCCATGACATGATTTTAGGGTTTGCTTGATATTGGGAAATGTTGGGTAAATCTGGACTTGGATTAAACACCTAATGGAAATAGTATCTAGGGATAGAATTAGGACATTTGGTTGTCTTAGATCTCAATTCTTAATGCGGAAATAATTGTTAGGTCTTCCAAGGGATTGGAGCCTAATAAGGAAGTCTAGGCTCTCTCTACCAAGGGATTGGGTTTGAGTAATTTAGTAGATTGACATTGGCATATTAATGAAGAGGAAGTGATTTTCTATACATAAGAGTGAAGTAGGTGAAATCATACCCCCAACAATACCATTCCATATCATTTCTAATCTTTCCATTTCCAAGTGTTTGAGTATCTAAGATCACTTTCATCAATTATGTTTCATGTTTACTTTAATTGCATAAAAACACAAATTATGAAGCATTCTTTAGTCTAAGTTAGTTGGAAATTATACGATTGTTTGGTGACACGAGTCTCTTGGGAAACGATATCCGGTCTTACCGGTTTTATTACTTGAAACGATTTGGTGCACTTGCCAAAGTCTCAACATTCTCTTACCTCAAAGAGAACTACACAGCTCTAAGAACATTCAACAGTTGCTTCAAACGCAAGAAAATCTAAAAACGCCTACAAAGCGCGTAATTGAAATCAAAATGAATCCTTAGGACCGTTGATCAACAAGGAACAAGAAAAGAGAAGTGGACGACACATGCTTCACCTTTAAACCTAGAGACTTTAGGAACAAAACAACAAATGAAAAAGGAACATAAACTTACTTGCTCTATAGAAGGAATTGATCGATTAAAAATATAGATCTCAATGCGGTACTCGTTTAGGCACCTCCTGATTGTCAAAGAAATGACTCAGGAGTTAGAAAAGATAAAGAAAAAGTAGAAAACTCAAGAGAAAATTTTTTAGAGAAATAATTTGTGTTTTATGTAATGAGATAAGTTTAAAAAATTCTATTTATATTATTATTTTAAAACTTAAATACTTGATTTTATTATTTTAAAACACTTATCAATTCTAATACTCACATTTTTACATTTTTATATTTTTATATTTTTATATTTTTATACGAGGGATCATTATCGAACTTCAAATAATAGTTTGATTTTAAATTGAATTGATTAACTAATTTAAGGAGAAGTTTGAAAGAAAAAAGTTATTAAATTTAATAAATTTAGTAGATGGAATTATTGGTTCTTTATAATATTTAAAAATTTGTAATGTATTTTAGTAGATAGAATTTATTTTCAATGTATGAGCCACGGTTGTTAAGTATGAAATCTGATAATTTATTATTTCCTTAACTACTAAGCTTTAAAAAAAAGGCAACTTACGAATCAGTACAAAACCAAAACCAGAGGTTTCTAATTAGCGTATAAGATGGGTCTCTGCTTCTCCAGTGCTCCATCACTCTATTCCCCTTCACGCAGCCGCCCTCACTATCAAGGCAAGATATCAAAATTTCAGTGCCCTTTCTAAATTCATTCACAAACAGAAAATGGGTTGTTCCTTTTTTTCGTCCGATTCTAATTTTCCCA

Gene Sequence:

>Vu_05752(+)

ATGTGGGGTTCGGTTCCTCTGTTTTCAGGTGCATCAGCCATTCACGGCAGCAGCGTCGAATTCTCCGAAACCACCACAACCACCGAGATCAGAAAGAGTCAGTTTTCCGTGAGAGAAACCATCTACAGCGATTGCTCTCCTCTTCCTTGTACCGATGGCCAAATTCTGAAATGGCCTGAGTTAAAGGTGTTCAGTTTTGAGGAGCTGAAATCTGCCACTGGAAATTTTAAATCCAACAGATTGGTCGGTGAAGGTGGGTTTGACAGAGTTTACAAGGGATGGTTGGATGAGAACACCCTCACCCCCGCCAAACCAGGCTCTGGAGTTGAAGTTGCCATCAAAATATTCAACCCGGAAGGTTCTCAAGGATTTGCACAGTGGCAGGTCGCTTTATTTTCATCTCATTTACATTTTTTAAACTTTAACTTTAAATTTTTAATGAACTGAAACTCTTCCGCCCTTAGATTAAAGTAATTGCTATCATGTTATGCATCTTAGCAATTGAATACAAACTTTTCTTTACAATGTGGTAAAGTTAGATGAACTTGTCCTTTTCTATCATGTTATGATTTTACTTGTCATGTTGCATTTAATTTCCGTGCCATAAATCCAACGTCTTGAACAACTTTGAGATGCTATTTAAATATGATTTTGTGTTGGTTGGAAGATACAGTCTGAGGTAAATGTTTTAGGAAGGCTTTCTCACCCCAACGTGGTCAGGTTATTGGGATACTGTTGGGACGAGGATCAGTTTCTTCTTGTGTTTGAGTTCATGTCAAAGGGAAGCTTATCGGGGCATCTCTTCATAAGTATGAACTGGTGACAATTAAAACAGATTGAAGGAAACAACTCTTGACTTTGAGTTTAATTCTTATTATTTGTCTTGTCTCTGAGCAGGAAATCATGAACCACTTTCGTGGAACACCCGGCTTAAAATAATTATTGGTGCAGCCCGGGGATTAGCTTTCTTGCATGCCAACGAAAATAAGGTCATATTCAGAGATTTCAAGACCTCAAATATACTTCTCGACGGGGTCAGTTAGTTTTTGTTCGTTGATGTTCGTATGTCGTATTGGAATCCAAAGCAAATACAGTATGAAATTTTGATGAATGGGCTGTTACTAATTTGGACCCATCATTGGTTTTATTAGGCAAACTCATTTTGAAAAAGTTTAACTCCATCTTTTAACATACAACCTGAAAAATGCAATATCTTCATTCTCATAGTCTCTTTCTTAGGACTGTCAATATTGTAGACCAGGTGACTAGTTGAAGAATAATATTACATGATGATACTTTTAAATTGAGTGCTAAATTCCTCATATAACTTTGATAAGCGATTGCTTTGTATAGTACAGAATTACAATGCAAAACTAACAGACTTTGGGTTGGCTAAATTGGGACCATCTGAGGGACAATCACATGTAAATACCAGTATCATTGGCACCTATGGTTATGCTGCACCAGAATATATCGCAACAGGTAATATATCTGGCTTATTTAGTTTGAGGAAGTACTTTTTGTTTTAATTTCACATGTTCACAAGTAATTACTTAAATGACACCTGACTTGTTTTGCGAAAATAAGCGAAAATAAGCCAAAAACAAAATAACAGAGAAAATTTCCTTAAAAAAATAACAGACCTTAATGTAATAATAGTAATGCAATGAATGTTTTGTGGATGATGAAGTTGGGAAGGTAGACTAAAAATAAGGAATGATGGAGTCCAATGCTTTGACTCAGCACAAACTAACATGTTTTTGGATTGTACGAATATTTGAACAGGGGACTTGTATGTGAAGAGTGATGTGTATGGATTTGGTGTAGTGCTTCTTGAAATACTGACAGGCATGAGGGCACTTGACACAAGAAGGCCAACAGGGCAGCAGAACCTGGTTGAATGGACCAAGTCCTGTCTCTCTTCCAAAAGAAAGTTGAAAACAATTATGGATTCTAAGATAGAGGGTCAATATTCACCCAAAGCTGCATTACAAGCAGCACAACTTGCTCTAAAATGCCTAGTGCATGATCCTTATCAACGTCCTTCAATGGAAGAAGTTCTTGAGGGATTGGAAGCTATTGAAGATAACCATTGA