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_02673	LG1	39760822	39762762	hypothetical protein LR48	Map

Annotations

category		relationship type		keyword

SNP	Position	Effect	Amino acid change
C/G	39760837	missense_variant	p.Gln6Glu
A/T	39760838	missense_variant	p.Gln6Leu
A/G	39760843	missense_variant	p.Arg8Gly
C/T	39760848	synonymous_variant	p.Phe9Phe
A/C	39760859	missense_variant	p.Lys13Thr
T/A	39760872	missense_variant	p.His17Gln
G/C,A	39760874	missense_variant	p.Arg18His
G/T	39760889	missense_variant	p.Arg23Ile
C/T	39760895	missense_variant	p.Pro25Leu
C/G	39760898	missense_variant	p.Pro26Arg
A/C	39760924	missense_variant	p.Thr35Pro
C/T,*	39760985	missense_variant	p.Ser55Phe
G/A	39761005	missense_variant	p.Gly62Ser
T/G	39761012	missense_variant	p.Leu64Arg
A/G	39761017	missense_variant	p.Thr66Ala
C/A	39761018	missense_variant	p.Thr66Asn
G/T	39761021	missense_variant	p.Gly67Val
A/C,*	39761031	missense_variant	p.Glu70Asp
A/T,*	39761042	missense_variant	p.Glu74Val
G/C	39761043	missense_variant	p.Glu74Asp
G/C,*	39761057	missense_variant	p.Arg79Pro
C/T,*	39761062	missense_variant	p.Pro81Ser
C/T,*	39761065	missense_variant	p.Leu82Phe
C/A,*	39761067	synonymous_variant	p.Leu82Leu
G/A,*	39761073	synonymous_variant	p.Arg84Arg
A/T	39761076	synonymous_variant	p.Ile85Ile
T/A	39761077	missense_variant	p.Ser86Thr
G/A	39761087	missense_variant	p.Ser89Asn
A/G	39761089	missense_variant	p.Lys90Glu
T/A	39761120	missense_variant	p.Val100Glu
T/C	39761153	missense_variant	p.Ile111Thr
T/G	39761159	missense_variant	p.Val113Gly
T/G,C	39761161	missense_variant	p.Tyr114His
C/T,G	39761171	missense_variant	p.Thr117Arg
C/T	39761174	missense_variant	p.Pro118Leu
A/C	39761176	missense_variant	p.Ile119Leu
T/C	39761177	missense_variant	p.Ile119Thr
C/T	39761186	missense_variant	p.Thr122Ile
G/A	39761191	missense_variant	p.Gly124Ser
C/T	39761197	missense_variant	p.Pro126Ser
T/G	39761207	missense_variant	p.Phe129Cys
C/G	39761209	missense_variant	p.Gln130Glu
A/G	39761210	missense_variant	p.Gln130Arg
A/T	39761212	missense_variant	p.Ser131Cys
T/C	39761216	missense_variant	p.Leu132Pro
C/A	39761218	missense_variant	p.Gln133Lys
T/C	39761231	missense_variant	p.Phe137Ser
T/A,G	39761244	synonymous_variant	p.Ser141Ser
A/G	39761245	missense_variant	p.Asn142Asp
G/C	39761275	missense_variant	p.Asp152His
A/G	39761276	missense_variant	p.Asp152Gly
C/T	39761295	synonymous_variant	p.Phe158Phe
C/T	39761308	missense_variant	p.Arg163Cys
T/C	39761310	synonymous_variant	p.Arg163Arg
C/T	39761313	synonymous_variant	p.Leu164Leu
A/C	39761314	missense_variant	p.Ser165Arg
C/G	39761332	missense_variant	p.Gln171Glu
T/C	39761337	synonymous_variant	p.Asn172Asn
T/G	39761338	missense_variant	p.Phe173Val
G/C	39761344	missense_variant	p.Glu175Gln
A/T	39761351	missense_variant	p.Glu177Val
G/A	39761352	synonymous_variant	p.Glu177Glu
A/G	39761353	missense_variant	p.Asn178Asp
C/T	39761357	missense_variant	p.Thr179Met
G/T	39761358	synonymous_variant	p.Thr179Thr
G/A	39761365	missense_variant	p.Asp182Asn
G/A	39761371	missense_variant	p.Ala184Thr
C/A	39761372	missense_variant	p.Ala184Glu
C/A	39761379	synonymous_variant	p.Leu186Leu
C/A	39761380	missense_variant	p.Leu187Ile
G/C	39761389	missense_variant	p.Ala190Pro
C/G,A	39761390	missense_variant	p.Ala190Asp
C/T	39761418	synonymous_variant	p.Ser199Ser
G/A	39761423	stop_gained	p.Trp201*
G/T	39761424	missense_variant	p.Trp201Cys
A/T	39761432	missense_variant	p.Glu204Val
G/A	39761436	synonymous_variant	p.Gly205Gly
T/G	39761448	synonymous_variant	p.Leu209Leu
G/A	39761456	missense_variant	p.Arg212His
A/T	39761464	missense_variant	p.Arg215Trp
G/C	39761465	missense_variant	p.Arg215Thr
T/C,G	39761477	missense_variant	p.Ile219Thr
C/G,T	39761499	missense_variant	p.Ser226Arg
G/C	39761524	missense_variant	p.Val235Leu
A/G	39761527	missense_variant	p.Thr236Ala
T/C	39761529	synonymous_variant	p.Thr236Thr
T/A	39761530	missense_variant	p.Tyr237Asn
C/G	39761532	stop_gained	p.Tyr237*
G/C	39761536	missense_variant	p.Glu239Gln
G/A	39761582	missense_variant	p.Arg254Lys
T/A	39761585	missense_variant	p.Ile255Lys
G/C,T	39761597	missense_variant	p.Cys259Ser
C/T	39761598	synonymous_variant	p.Cys259Cys
G/A	39761599	missense_variant	p.Gly260Ser
G/C	39761603	missense_variant	p.Cys261Ser
C/T	39761605	missense_variant	p.Leu262Phe
G/T	39761615	missense_variant	p.Arg265Met
A/G	39761625	synonymous_variant	p.Pro268Pro
T/G	39761628	missense_variant	p.Asp269Glu
C/A,*	39761654	missense_variant	p.Ala278Asp
T/A	39761661	synonymous_variant	p.Ile280Ile
G/A	39761662	missense_variant	p.Asp281Asn
A/G	39761671	missense_variant	p.Lys284Glu
C/G	39761677	missense_variant	p.Leu286Val
T/C	39761678	missense_variant	p.Leu286Pro
C/G	39761691	synonymous_variant	p.Leu290Leu
G/C	39761736	synonymous_variant	p.Leu305Leu
G/A	39761737	missense_variant	p.Asp306Asn
T/C	39761739	synonymous_variant	p.Asp306Asp
G/A	39761741	missense_variant	p.Ser307Asn
G/C	39761744	missense_variant	p.Cys308Ser
C/A	39761750	missense_variant	p.Ala310Asp
G/C	39761811	synonymous_variant	p.Ser330Ser
G/C	39761816	missense_variant	p.Cys332Ser
T/G	39761818	missense_variant	p.Tyr333Asp
A/C	39761819	missense_variant	p.Tyr333Ser
T/C	39761820	synonymous_variant	p.Tyr333Tyr
G/A,C	39761840	missense_variant	p.Arg340Lys
T/A	39761847	synonymous_variant	p.Ile342Ile
T/G	39761856	missense_variant	p.Phe345Leu
A/T	39761871	missense_variant	p.Glu350Asp
T/C	39761872	synonymous_variant	p.Leu351Leu
A/G	39761877	synonymous_variant	p.Ser352Ser
G/C	39761888	missense_variant	p.Ser356Thr
C/T	39761897	missense_variant	p.Ala359Val
T/C	39761907	synonymous_variant	p.Pro362Pro
T/G	39761940	synonymous_variant	p.Ser373Ser
C/T	39761976	synonymous_variant	p.Ile385Ile
C/T	39761980	missense_variant	p.His387Tyr
T/A	39761982	missense_variant	p.His387Gln
C/A	39761988	synonymous_variant	p.Pro389Pro
C/T	39761994	synonymous_variant	p.Phe391Phe
A/T	39761997	synonymous_variant	p.Leu392Leu
A/C	39761998	missense_variant	p.Lys393Gln
T/C	39762004	synonymous_variant	p.Leu395Leu
G/A	39762006	synonymous_variant	p.Leu395Leu
A/C	39762022	missense_variant	p.Thr401Pro
C/A	39762027	synonymous_variant	p.Ser402Ser
A/T,C	39762030	synonymous_variant	p.Ile403Ile
G/A	39762034	missense_variant	p.Gly405Arg
T/G,*	39762059	missense_variant	p.Leu413Arg
C/G	39762065	missense_variant	p.Pro415Arg
A/T	39762086	missense_variant	p.Glu422Val
G/A	39762097	missense_variant	p.Gly426Arg
C/T	39762103	missense_variant	p.His428Tyr
C/A	39762108	missense_variant	p.Phe429Leu
T/A	39762144	synonymous_variant	p.Ala441Ala
A/G	39762156	synonymous_variant	p.Glu445Glu
C/T	39762237	synonymous_variant	p.Phe472Phe
G/A	39762245	missense_variant	p.Arg475His
A/G	39762248	missense_variant	p.Asn476Ser
C/A,T	39762256	missense_variant	p.Pro479Thr
C/G	39762257	missense_variant	p.Pro479Arg
A/G	39762261	synonymous_variant	p.Ser480Ser
A/C,G	39762266	missense_variant	p.Asn482Thr
A/C	39762283	missense_variant	p.Ser488Arg
G/C	39762300	missense_variant	p.Glu493Asp
C/A	39762306	synonymous_variant	p.Leu495Leu
C/T	39762317	missense_variant	p.Ala499Val
T/C	39762333	synonymous_variant	p.Phe504Phe
G/A	39762337	missense_variant	p.Val506Met
G/C	39762339	synonymous_variant	p.Val506Val
A/T	39762346	missense_variant	p.Thr509Ser
T/G	39762348	synonymous_variant	p.Thr509Thr
T/A	39762353	missense_variant	p.Val511Asp
T/G,A	39762380	missense_variant	p.Val520Asp
T/C	39762389	missense_variant	p.Leu523Pro
C/T	39762408	synonymous_variant	p.Asp529Asp
A/G	39762409	missense_variant	p.Asn530Asp
A/T	39762419	missense_variant	p.His533Leu
T/G	39762420	missense_variant	p.His533Gln
G/T	39762439	missense_variant	p.Val540Leu
G/A	39762441	synonymous_variant	p.Val540Val
A/G	39762444	synonymous_variant	p.Leu541Leu
C/A	39762447	missense_variant	p.Asn542Lys
C/A	39762458	missense_variant	p.Thr546Lys
A/C	39762472	missense_variant	p.Ser551Arg
G/C	39762478	missense_variant	p.Val553Leu
A/G	39762504	missense_variant	p.Ile561Met
A/T	39762515	missense_variant	p.Asn565Ile
C/T	39762525	synonymous_variant	p.Ser568Ser
G/A	39762530	missense_variant	p.Arg570Lys
C/G	39762533	missense_variant	p.Thr571Arg
A/C	39762537	missense_variant	p.Arg572Ser
G/A	39762539	missense_variant	p.Gly573Asp
C/G	39762587	missense_variant	p.Thr589Ser
A/G	39762601	missense_variant	p.Asn594Asp
T/C	39762603	synonymous_variant	p.Asn594Asn
T/A	39762608	missense_variant	p.Leu596Gln
G/A	39762616	missense_variant	p.Asp599Asn
T/C	39762621	synonymous_variant	p.Tyr600Tyr
C/G	39762622	missense_variant	p.Leu601Val
T/A	39762623	missense_variant	p.Leu601His
C/T,*	39762626	missense_variant	p.Ser602Leu
T/*,C	39762632	missense_variant	p.Val604Ala
A/G,*	39762642	synonymous_variant	p.Leu607Leu
A/*,G	39762645	synonymous_variant	p.Lys608Lys
T/A	39762650	missense_variant	p.Val610Asp
A/G	39762658	missense_variant	p.Ile613Val
A/G	39762666	synonymous_variant	p.Glu615Glu
A/C	39762672	synonymous_variant	p.Gly617Gly
A/T	39762673	missense_variant	p.Met618Leu
G/A	39762675	missense_variant	p.Met618Ile
A/G	39762688	missense_variant	p.Ser623Gly
A/G	39762691	missense_variant	p.Thr624Ala
C/G	39762692	missense_variant	p.Thr624Ser
G/A	39762695	missense_variant	p.Gly625Glu
T/C	39762705	synonymous_variant	p.Val628Val
G/T	39762706	missense_variant	p.Ala629Ser
G/C	39762709	missense_variant	p.Glu630Gln
G/A	39762723	synonymous_variant	p.Glu634Glu
G/C	39762734	missense_variant	p.Arg638Thr
G/A	39762735	synonymous_variant	p.Arg638Arg
C/A	39762740	missense_variant	p.Ala640Glu

View accession wise SNPs

Sequence Details:

Protein Sequence:
>Vu_02673.1

MFSTSQPRFPHVKLERHRGTISRSPPKKPEYQPGTVSSFPRLKQQLHGRRAFPRSSVRDGLGELHTGSKEVFKECQVERYPLSRISLPSKIFSIIFMRYVEEEKEVTNNNIYVYDETPIQLTGGVPLNFQSLQKLCFIDLSNCSSLTIFPFDLSEMKFLKKLRLSGCSKLQNFPEIENTMEDLAVLLLDATAIQALPSSLWRLEGLQELSLRSCRNLEIIPSSIGSLTRLCKLDVTYCESLQTFPSTIFKLKLRILDLCGCLKLRTFPDITEPTQTFAHIDLTKTLIKELPSSFGNLVKLRSLQLDSCSALESLPNSIVNLKHLCKLDCSGCYKLTEIPRHIGRFTSLVELSLSESGIANLPESIAHLSSLKSLDLSDCKKLECIPHIPPFLKQLVALDCTSIRGVMSNSNSLVPNLSNSKEGFFGFHFTNAQQLDSGARANIEEDARLRMSDDAYGSVCFCFPGSAVPHWFPFRNEGPSVNINEDLSFCSDERLIGFALCVVFGVLDTNVIKSRCGSFVYSLKFECDDNGTHIIPNNDVLNNYFTWGYSSRVLDKDHTFIWKFNLESLRTRGMNLRLSDARSFTFEITPYDYNFLWPDYLSVVNELKSVVTIKECGMCPLYSTGSNVAESSKEDRKRKAESYLVG*

CDS Sequence:
>Vu_02673.1

ATGTTTTCAACCAGTCAACCCAGATTCCCTCATGTGAAACTGGAGCGTCATCGTGGAACTATCTCAAGATCCCCTCCTAAGAAACCGGAGTATCAACCTGGAACTGTCTCAAGTTTCCCTCGTTTGAAACAGCAGTTACACGGACGTAGAGCTTTCCCAAGATCCTCTGTTAGGGATGGTCTGGGTGAACTTCATACTGGCTCAAAAGAAGTGTTTAAGGAGTGTCAAGTTGAACGTTATCCTCTCTCAAGGATATCCCTTCCCAGTAAAATTTTCTCAATTATTTTTATGAGATATGTGGAAGAAGAAAAAGAAGTGACTAATAATAATATATACGTATATGATGAAACGCCGATACAACTCACTGGAGGTGTGCCCTTAAACTTTCAAAGTCTCCAGAAGCTCTGTTTCATAGATCTCTCTAACTGTTCTTCCCTTACAATATTTCCATTTGACCTTTCTGAGATGAAATTCCTAAAGAAACTTCGTCTCAGTGGTTGCTCAAAATTGCAAAATTTCCCCGAGATTGAGAACACGATGGAAGATTTAGCGGTTCTCCTCTTAGACGCCACAGCCATACAGGCACTACCTTCATCCTTGTGGCGTTTGGAAGGGCTTCAAGAACTTAGTTTGCGCAGTTGCAGGAATCTTGAGATTATTCCATCTTCCATTGGAAGCCTCACCAGACTATGCAAGTTAGACGTTACTTACTGTGAATCACTTCAAACTTTTCCAAGCACCATTTTCAAATTGAAGTTGAGGATACTTGATTTGTGCGGTTGCCTTAAGTTGAGGACCTTCCCAGATATCACGGAGCCGACACAAACTTTTGCTCACATTGACTTAACAAAAACGCTTATCAAAGAACTCCCTTCCTCGTTTGGCAATTTGGTTAAGCTTCGATCCCTGCAGCTGGATAGTTGCTCTGCTCTCGAGTCACTTCCAAACTCCATTGTTAATCTAAAGCATCTCTGTAAACTTGATTGTTCGGGGTGTTATAAATTAACAGAAATCCCAAGACACATTGGTCGGTTTACGTCATTAGTGGAATTGTCACTGAGTGAGAGCGGAATCGCGAACCTTCCTGAGAGCATTGCTCATCTTTCGAGCTTGAAATCTCTTGATTTAAGCGATTGCAAAAAGCTTGAATGCATCCCACATATTCCCCCATTCCTAAAACAATTGGTGGCATTGGATTGCACATCCATAAGAGGAGTGATGTCAAACTCAAATTCTCTTGTTCCAAACCTCTCAAACTCCAAAGAGGGTTTCTTCGGATTTCATTTCACCAATGCTCAACAACTGGATTCAGGTGCTCGTGCTAACATTGAGGAAGATGCAAGGCTTAGGATGAGCGACGATGCGTATGGGTCTGTGTGCTTCTGTTTTCCAGGGAGTGCAGTTCCTCATTGGTTCCCTTTTCGCAACGAAGGACCTTCAGTGAATATAAATGAAGATTTAAGTTTCTGCAGCGATGAGAGACTCATTGGTTTCGCTTTGTGTGTGGTTTTTGGAGTGTTAGATACTAATGTTATTAAAAGCAGATGCGGTTCTTTTGTTTACAGCCTAAAATTTGAATGTGATGACAATGGCACACATATAATTCCAAATAATGATGTGTTAAACAACTATTTCACATGGGGTTATAGTAGCAGAGTCCTTGATAAAGATCACACATTTATATGGAAATTTAACTTGGAGAGCCTAAGGACGAGAGGCATGAACCTTAGGCTCAGTGATGCTCGCAGCTTCACTTTTGAGATCACTCCATATGATTATAATTTTCTGTGGCCAGATTATCTCTCAGTTGTGAATGAGTTAAAATCAGTTGTGACAATAAAAGAATGCGGAATGTGCCCTCTTTATAGCACCGGAAGCAATGTTGCAGAGTCTTCAAAGGAGGATAGGAAGAGGAAGGCAGAAAGCTACTTAGTGGGCTAG

Promoter Sequence:
>Vu_02673::LG1:39758822-39760822(+)

ATAAAACTTTTGTTATTTTTTTAACCCACTAATATCCGTAGTAGGTTGGGCCGGGTTCAAATTTTTTTAACTCGCTAATAAGTGAGTCAAGTTGGGTTGGCTCACTAAGTAGCCAACCTGTGGTGGGTCGAGCCGAGTTGGGCTAGGTGACCCATTTTGACGATACTATAAAAAATAAAATTTTCTATGAGTGTTCTACTGTTTAGGTTTTGCCTATTGACTCTTGATCTACTAATTTAAAAAAAAATACATATATTACAAGACTTCAACAACTAAATTATTAAGTCTTTCATCTCTTAAATCCAAGCATTTTTTTTAAATTTTCAATATTTCTCCATGAGTCATCATCGTCAAAAATTTTTATTGAAGTAAAATGACTATCTTCTTCTTTTGTCAACATTTAGATAAAAATAAATTCTAAAAGCATGTTTTCTACTTTGTACATCTACATGTTTTCACAATTTCTTCATGCCTTCTTCACATTAATCATCTTGATATTGTTTTTATTAGAACCACATAATTGTACTTATATTATTAGAATTATATTAGCATGCTTCTAAAGATAATTATAAATCAAATAGTATGGAGAAGAGTTTGCATGCGTTTTATGCATATGGTGCAATGTCCTGTGATTGTATGTCTACCAATATATATTATTTTTCTTTATCAAATTTGGTTTAATGTTATTTATGATTTTTAAGTAATATTAGTGGGGGATTTTAAAAAATATTTTAAGGGTGTGATAATTGATGTGTAAAATTCTGGAAATGCTAAATATAAAAAATATACTAAAATTAAAATAAATTATATTTATTTATATATTAATTTATATAAAAACAAAGGTTGATAGAAGAAGGCCCTCATTGCCATTTATTATTATAAATTACAATCATAAGTTTTATCAATCCCTAACAAGTTTAGGTTGAAATTATTAGAGTGTTTTAGTACGGATGGGTAAAGGGTAGAGTGTACTAAACTGTTTTGTATTATAAAAATTTATAATTAATTATAAAATAGTTTGTTTGAACTGAAAAAAAACAACCATTTGAACTGACACTGTCCTGTTTCATGTAACTTCATTATAGACTCTATCATTCAGATTCAAAACATCTGAAATCATTAAGTAAAAAAGCATACAAAATGCATGATCATATAAGAATAAGAAATTGTAAGTTTAAAAAACAAATTAAGGATAGCAAATCACACCTTCTGAAGAGTGTAATGCATTTTAAGAAAGAATATATAAATTTTTCCTAAAAGCGATTAAATAGAAATGTAAAAGAAAAAAACAGTTCATAAATTGACTGGACTCAATATAAAAAATTCTGTTTTTTTAAAGTGAACTATAAAATATCGTAATTAATTTTTAGTAAAAAACAGTTTAGTTTTTTAAGGTACAATATAAATATAATATAGATGACTATAGTACACTACAACTTGCTGAATTATATCCCGGCCTAAGCATAATTTGGAAAATTTGGTTATTTCGCAGTGTGATCTTTATAACAGTGGTATTTATGTAAAATATAAAGTAAATAGATACCGTAACTAAGACTTTATAAAGTAAATAGATACTGTAACTAAGAGTTTATAAAGTAAATAGATACTGTAACTAAGAGTTTATAAAGTAAATAGATACTGTAACCAAGAGTTTACCGGAGAAAAATAGATAAAATTGTTTAAAACTTTAATTTAGTTTTTCTTTATTACCTGATTCGTTTACTTTTTGTAACAGAGTTTACCGAAGTTGAAAAGGCTCAACCTGAGTTGTTCTCGGGAACTTACTAGAATACAAGACCTTTCCCTGTCACCAAATATTGAAGAAATAATTCTCAATAATTGTGGAAAATTGATTAAAGTTCACTCTTCCATATTACTCACCAAACTCACTTGTTTACTATTAGATGGATGTCATAATCTCAGTAGTGCAATTGTTCCCAGCAATATTCTATCCAGATCACCAGGATTGATTCTTCTTTCCTCGTGTGACAAGCTTAAAA

Gene Sequence:

>Vu_02673(+)