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_28860	LG8	15264587	15266788	putative disease resistance protein RGA4	Map

Annotations

category		relationship type		keyword

SNP	Position	Effect	Amino acid change
G/A	15264597	missense_variant	p.Ser731Leu
C/T	15264620	synonymous_variant	p.Glu723Glu
C/T	15264777	missense_variant	p.Gly671Asp
G/A	15264821	synonymous_variant	p.Pro656Pro
A/C	15264856	missense_variant	p.Ser645Ala
C/G	15264920	missense_variant	p.Glu623Asp
T/C	15264921	missense_variant	p.Glu623Gly
A/G	15264931	missense_variant	p.Phe620Leu
G/A	15264993	missense_variant	p.Thr599Ile
C/T	15265003	missense_variant	p.Ala596Thr
A/G	15265015	missense_variant	p.Phe592Leu
T/A	15265103	synonymous_variant	p.Gly562Gly
C/G	15265104	missense_variant	p.Gly562Ala
T/C	15265106	synonymous_variant	p.Glu561Glu
C/T	15265108	missense_variant	p.Glu561Lys
C/A	15265129	missense_variant	p.Asp554Tyr
A/C	15265130	missense_variant	p.Cys553Trp
A/G	15265157	synonymous_variant	p.Ser544Ser
G/T	15265158	missense_variant	p.Ser544Tyr
A/T	15265165	missense_variant	p.Leu542Met
G/A	15265205	synonymous_variant	p.Thr528Thr
T/A	15265217	missense_variant	p.Gln524His
G/T	15265282	missense_variant	p.Leu503Ile
A/C	15265284	missense_variant	p.Ile502Ser
C/A	15265343	missense_variant	p.Met482Ile
A/T	15265344	missense_variant	p.Met482Lys
G/A	15265408	missense_variant	p.His461Tyr
T/C	15265448	synonymous_variant	p.Arg447Arg
C/T	15265482	missense_variant	p.Ser436Asn
C/T,*	15265519	missense_variant	p.Ala424Thr
G/T	15265520	synonymous_variant	p.Pro423Pro
A/G	15265535	synonymous_variant	p.Gly418Gly
A/C	15265540	missense_variant	p.Cys417Gly
G/A	15265544	synonymous_variant	p.Asp415Asp
G/A	15265574	synonymous_variant	p.Asn405Asn
G/A,*	15265679	synonymous_variant	p.Val370Val
C/T	15265681	missense_variant	p.Val370Ile
T/C	15265721	synonymous_variant	p.Leu356Leu
C/T	15265828	missense_variant	p.Val321Ile
G/C	15265857	missense_variant	p.Ser311Cys
C/G	15265886	synonymous_variant	p.Leu301Leu
A/G	15265895	synonymous_variant	p.Tyr298Tyr
G/A	15265898	synonymous_variant	p.Ser297Ser
G/C	15265912	missense_variant	p.Pro293Ala
A/T	15265913	synonymous_variant	p.Pro292Pro
G/T	15265922	synonymous_variant	p.Gly289Gly
C/T	15265923	missense_variant	p.Gly289Asp
T/A	15265925	missense_variant	p.Lys288Asn
T/C	15265926	missense_variant	p.Lys288Arg
T/C	15265927	missense_variant	p.Lys288Glu
T/A	15265932	missense_variant	p.Asn286Ile
G/T	15265939	missense_variant	p.Gln284Lys
A/G	15265949	synonymous_variant	p.Ile280Ile
T/C	15265951	missense_variant	p.Ile280Val
A/G	15265967	synonymous_variant	p.Ser274Ser
A/C	15265976	missense_variant	p.Asp271Glu
T/C	15265984	missense_variant	p.Lys269Glu
A/T	15265986	missense_variant	p.Val268Asp
C/A	15265990	missense_variant	p.Val267Phe
A/G	15266002	synonymous_variant	p.Leu263Leu
C/T	15266003	synonymous_variant	p.Ser262Ser
A/G	15266006	synonymous_variant	p.Ser261Ser
C/A	15266012	synonymous_variant	p.Val259Val
C/T	15266015	synonymous_variant	p.Thr258Thr
G/C	15266023	missense_variant	p.Leu256Val
T/A	15266024	synonymous_variant	p.Ala255Ala
C/T	15266027	synonymous_variant	p.Leu254Leu
C/A	15266030	synonymous_variant	p.Pro253Pro
G/C	15266038	missense_variant	p.Arg251Gly
T/A,C	15266051	synonymous_variant	p.Val246Val
G/T	15266054	synonymous_variant	p.Ile245Ile
T/C	15266056	missense_variant	p.Ile245Val
C/T	15266063	synonymous_variant	p.Ala242Ala
G/C	15266064	missense_variant	p.Ala242Gly
G/A	15266074	synonymous_variant	p.Leu239Leu
T/C	15266075	synonymous_variant	p.Leu238Leu
C/G	15266080	missense_variant	p.Glu237Gln
T/A	15266081	synonymous_variant	p.Pro236Pro
G/A	15266086	missense_variant	p.His235Tyr
G/T	15266087	missense_variant	p.Asn234Lys
C/T	15266093	synonymous_variant	p.Glu232Glu
C/T	15266096	synonymous_variant	p.Glu231Glu
G/A	15266102	synonymous_variant	p.Asp229Asp
T/A	15266105	missense_variant	p.Glu228Asp
A/G	15266108	synonymous_variant	p.Phe227Phe
C/A	15266111	synonymous_variant	p.Ala226Ala
A/C	15266132	synonymous_variant	p.Leu219Leu
C/A	15266140	missense_variant	p.Asp217Tyr
T/C	15266141	synonymous_variant	p.Glu216Glu
A/G	15266150	synonymous_variant	p.Leu213Leu
T/C	15266157	missense_variant	p.Glu211Gly
C/T	15266168	synonymous_variant	p.Pro207Pro
G/A	15266169	missense_variant	p.Pro207Leu
G/A	15266170	missense_variant	p.Pro207Ser
G/A	15266175	missense_variant	p.Ser205Leu
G/T	15266177	synonymous_variant	p.Ser204Ser
T/C,*	15266187	missense_variant	p.His201Arg
G/A,*	15266188	missense_variant	p.His201Tyr
C/T	15266192	missense_variant	p.Met199Ile
A/G	15266193	missense_variant	p.Met199Thr
C/T	15266200	missense_variant	p.Ala197Thr
C/T	15266206	missense_variant	p.Ala195Thr
T/C	15266208	missense_variant	p.His194Arg
A/G	15266219	synonymous_variant	p.Thr190Thr
C/G	15266227	missense_variant	p.Val188Leu
A/C	15266237	synonymous_variant	p.Gly184Gly
C/A	15266239	missense_variant	p.Gly184Cys
T/C	15266247	missense_variant	p.Asp181Gly
C/T	15266248	missense_variant	p.Asp181Asn
G/A	15266250	missense_variant	p.Ser180Leu
A/C	15266251	missense_variant	p.Ser180Ala
C/T	15266265	missense_variant	p.Arg175Lys
T/A	15266266	missense_variant	p.Arg175Trp
T/C	15266267	synonymous_variant	p.Leu174Leu
G/C	15266275	missense_variant	p.His172Asp
C/T	15266280	missense_variant	p.Arg170Lys
T/G	15266281	synonymous_variant	p.Arg170Arg
G/T	15266283	missense_variant	p.Ala169Glu
T/G	15266329	missense_variant	p.Lys154Gln
T/C	15266335	missense_variant	p.Lys152Glu
G/C	15266340	missense_variant	p.Thr150Arg
A/C	15266342	missense_variant	p.Asn149Lys
T/C,G	15266344	missense_variant	p.Asn149Asp
A/G	15266350	synonymous_variant	p.Leu147Leu
T/A,C	15266352	missense_variant	p.His146Leu
A/G	15266354	synonymous_variant	p.Asn145Asn
T/A	15266355	missense_variant	p.Asn145Ile
T/C	15266369	missense_variant	p.Ile140Met
A/G	15266370	missense_variant	p.Ile140Thr
G/A	15266377	missense_variant	p.Leu138Phe
T/C	15266380	missense_variant	p.Asn137Asp
A/G	15266385	missense_variant	p.Phe135Ser
T/C	15266393	synonymous_variant	p.Arg132Arg
T/G	15266395	synonymous_variant	p.Arg132Arg
A/G	15266409	missense_variant	p.Ile127Thr
T/C	15266410	missense_variant	p.Ile127Val
A/G	15266411	synonymous_variant	p.Ser126Ser
A/G	15266417	synonymous_variant	p.Leu124Leu
A/G	15266420	synonymous_variant	p.Ile123Ile
G/A,T	15266426	synonymous_variant	p.Val121Val
C/T	15266428	missense_variant	p.Val121Ile
C/T	15266452	missense_variant	p.Asp113Asn
G/A	15266460	missense_variant	p.Ala110Val
C/A	15266468	missense_variant	p.Trp107Cys
G/T	15266481	missense_variant	p.Pro103Gln
G/T	15266490	missense_variant	p.Ala100Glu
G/T	15266502	missense_variant	p.Thr96Lys
A/G	15266525	synonymous_variant	p.Leu88Leu
G/T	15266528	synonymous_variant	p.Thr87Thr
C/T	15266537	synonymous_variant	p.Gly84Gly
A/C	15266555	synonymous_variant	p.Val78Val
A/G	15266556	missense_variant	p.Val78Ala
A/G	15266563	missense_variant	p.Ser76Pro
C/T	15266569	missense_variant	p.Val74Ile
C/A,G	15266576	missense_variant	p.Arg71Ser
G/C	15266581	missense_variant	p.Gln70Glu
G/A	15266582	synonymous_variant	p.Arg69Arg
C/T	15266583	missense_variant	p.Arg69His
G/A	15266584	missense_variant	p.Arg69Cys
C/G	15266589	missense_variant	p.Gly67Ala
T/C	15266599	missense_variant	p.Met64Val
A/C,G	15266600	synonymous_variant	p.Leu63Leu
G/A	15266602	missense_variant	p.Leu63Phe
G/T,C	15266606	missense_variant	p.Asn61Lys
T/C	15266607	missense_variant	p.Asn61Ser
G/T,C	15266611	missense_variant	p.Leu60Val
T/C	15266622	missense_variant	p.Lys56Arg
G/C	15266629	missense_variant	p.His54Asp
C/T	15266636	synonymous_variant	p.Gly51Gly
C/T	15266638	missense_variant	p.Gly51Arg
A/G	15266662	missense_variant	p.Tyr43His
T/A,*	15266675	missense_variant	p.Glu38Asp
T/G,*	15266676	missense_variant	p.Glu38Ala
C/T,*	15266677	missense_variant	p.Glu38Lys
G/A,*	15266684	synonymous_variant	p.His35His
A/G,C	15266690	synonymous_variant	p.Val33Val
A/T,*	15266702	missense_variant	p.His29Gln
C/G,*	15266707	missense_variant	p.Asp28His
T/C	15266713	missense_variant	p.Ile26Val
C/G	15266721	missense_variant	p.Gly23Ala
G/T	15266742	missense_variant	p.Ala16Glu
C/T	15266752	missense_variant	p.Ala13Thr
T/C	15266756	synonymous_variant	p.Arg11Arg
A/G	15266759	synonymous_variant	p.Thr10Thr
G/C	15266765	missense_variant	p.Ile8Met
C/T	15266778	missense_variant	p.Arg4His

View accession wise SNPs

Sequence Details:

Protein Sequence:
>Vu_28860.1

MAHRIQDINTRLAKLAADRNMFGLQIIDHDTRVVHVREMTHSYVNPSNVTGREHDKNEILNLLMQDGDRQRLSVISIVGMGGLGKTTLAKLVFNDTNIDACFPLKMWVCASNDFELRNVLVKILNSIPNPTRENFNNLEIEQLQNHLRNTLKGKKFLLVLDDVWNEDPARWHELREIIDSDVEGSKVVVTTRSHAVAAMMHTKSSNPYLLECLSEEDSLSLFVKYAFEDGEEKNHPELLEIAKEIVEKCGRLPLALKTVGSSLFSKVVKKDWESIRDNEIWNLQQNEKGILPPLKLSYDQLPSYLKPCFASLFLYEFDINVLCYDLSMVLDSLGFLPPPKEGESMSDVANQVLRELRTRSFLSDDLDFGVDSCFEMHDLVSDLAVYIGKGEFERVDRRNPKLSENAQHLVFEENDFCGQDLVPAGVRSVVFRNGGSDINFLNTLVSRCKYLRLLDLRYSEHESLPQCMGKLKHLRFLCLAKMEKLKELPDSVCKLQNLQTLILSGCTNLQKLPKGMKNLVSLRQLAITTAQADFPKELIANLTSLENLSFTECDNLESLFEGVQLSTVKSLILSECGSLKSVSLHAFRNLEFLMIADCTKLELSMSLSCQIPDSKLKYLFLDELPQLVKLPQSFQGSANTLQHLSISDCVNLDELPEWLPTLICLKVLDIGSCPKLLSLPNIHHLTNLENLEIVDCPELCRRFKPEVGQDWHKISHIKIVHIEDSDTEEESSE*

CDS Sequence:
>Vu_28860.1

ATGGCGCATCGCATTCAAGACATCAACACTAGATTGGCCAAACTTGCAGCTGATAGGAACATGTTTGGCCTTCAAATCATTGACCATGATACACGTGTTGTGCACGTGAGGGAAATGACTCATTCTTATGTAAACCCTTCCAATGTTACAGGGAGGGAACATGATAAGAATGAAATACTAAACCTTCTTATGCAAGATGGTGATCGCCAAAGGCTTTCTGTTATTTCCATTGTTGGAATGGGAGGCTTGGGGAAAACCACCCTTGCTAAGTTGGTCTTCAATGACACAAACATTGATGCATGTTTTCCGTTGAAGATGTGGGTCTGTGCCTCTAATGATTTTGAACTTAGGAATGTGCTCGTCAAAATTCTTAATTCTATTCCAAACCCAACTAGAGAAAACTTCAATAACCTTGAGATAGAGCAACTTCAAAATCATTTGAGAAATACACTTAAAGGTAAGAAGTTCTTGCTTGTGTTGGATGACGTGTGGAACGAGGATCCTGCAAGATGGCATGAGTTAAGGGAAATAATAGATTCGGATGTTGAAGGTAGTAAAGTCGTAGTGACTACTCGTAGCCATGCAGTAGCTGCCATGATGCATACTAAATCCTCAAATCCGTACCTTCTTGAATGTCTTTCTGAAGAAGATTCTCTTTCTCTATTTGTGAAATATGCGTTTGAAGACGGAGAGGAGAAAAACCATCCAGAACTACTGGAGATTGCGAAAGAAATCGTAGAAAAATGTGGACGGTTACCGTTGGCACTGAAAACGGTGGGGAGTTCGTTGTTCTCGAAGGTTGTTAAGAAAGATTGGGAGTCTATAAGAGACAATGAGATTTGGAATTTACAACAAAATGAAAAAGGCATTTTGCCTCCTCTCAAACTAAGCTATGATCAACTGCCTTCATATTTAAAACCATGTTTTGCTTCTTTATTCCTTTATGAATTTGACATTAATGTTTTATGTTATGATCTTTCCATGGTGTTGGATTCACTTGGTTTTCTTCCACCACCAAAGGAGGGTGAATCAATGAGTGATGTTGCCAATCAAGTTTTGCGTGAACTAAGGACAAGATCGTTTCTTTCCGATGATCTTGACTTTGGGGTCGATTCTTGTTTTGAAATGCATGATTTGGTAAGTGATCTTGCAGTGTATATTGGGAAAGGTGAATTTGAAAGAGTCGATCGCCGCAATCCAAAACTATCGGAGAACGCCCAGCATTTAGTATTTGAGGAAAATGACTTTTGTGGTCAAGATCTTGTCCCCGCCGGTGTCAGATCTGTTGTTTTTCGTAACGGAGGGAGCGATATAAATTTCTTGAATACATTGGTGTCAAGATGCAAATACTTGAGGCTTTTGGACTTACGTTATTCAGAACACGAGAGTCTGCCTCAGTGTATGGGAAAGTTGAAACATTTAAGATTTCTCTGCCTTGCAAAAATGGAAAAACTTAAGGAACTTCCTGATTCAGTCTGCAAACTTCAAAATTTGCAAACTTTAATCCTTAGTGGATGCACAAATCTGCAGAAGTTACCCAAAGGAATGAAAAATCTTGTTAGCCTTCGTCAATTGGCTATAACCACCGCACAAGCTGATTTTCCAAAAGAATTGATTGCAAATTTGACTTCTTTAGAAAATTTATCTTTTACTGAATGTGATAATTTGGAGTCATTGTTCGAAGGAGTACAACTTTCAACTGTCAAAAGTTTGATTTTGTCTGAGTGTGGAAGTCTAAAGTCGGTGTCGCTCCATGCCTTCAGAAATTTAGAGTTTTTAATGATCGCCGATTGCACCAAGTTGGAATTGTCAATGAGCCTTAGCTGCCAAATCCCCGATTCAAAGTTAAAGTATCTTTTTCTTGATGAGTTGCCACAACTAGTTAAATTGCCTCAGTCGTTTCAAGGATCTGCAAACACTTTACAACACTTATCAATTTCAGATTGCGTCAATCTTGATGAACTTCCCGAGTGGCTACCAACTCTAATTTGTCTCAAAGTACTTGACATTGGCAGTTGTCCTAAGCTACTGTCACTCCCTAATATTCATCACCTCACAAATCTTGAAAATTTAGAAATCGTTGATTGTCCTGAGTTATGCAGAAGATTCAAGCCAGAAGTTGGACAAGATTGGCACAAGATATCACATATCAAAATAGTTCACATTGAGGATTCAGATACTGAAGAAGAATCATCCGAATAA

Promoter Sequence:
>Vu_28860::LG8:15266788-15268788(-)

TAGTATGTTTGTTAGCAGGAGCAGAAGATCTTAAATTTGAAGAGGCCGTGCTTGATGATAGATGGAAGAAAGCAATGGATGAGGAGATCGATTCAATTGAAAAGAATGAAACATGGGAGCTGACAGATATACCCAAAGGAGCTCAACCAATTGGCTTGAAATGGGTATATAAGAAGAAAATCAACGCAGACGGAGATGTGGAACGTTACAAAGCTCGACTCGTGGTGAAGGGTTATAAACAACAGAAAGGTATTGACTATAATGAAGTGTTTGCCCCTGTAACAAGGATGGAGACAATCCGACTGCTATTTTCTTTGGCAGCACAACATGGTTGGACGATACAACAAATGGATGTGAAATCTGCATTTTTGAATGGAGTTTTAAAAGAAGAAGTCTACGTGGAGCAACCTCTCGGTTACATGCGAAGAGGAGAAGAAAAGAAGGTGTTGAAGTTAAAGAAGGCGTTGTACGGCCTGAAACAAGCTCCTCGAACCTGGAATGAAAGGATTGACACCTACTTCAAGAATAATGGTTATGAGCAGTGTCCGTATGAACATGCTCTATACCTAAAAAAGAAGAAAGGAGAAATGTTGTTTGTTGCCCTATACGTAGATGATTTAATTTTCATGGGAAGCAAAATTGAGCTAATCAACGAGTTTAAGGAGGTAATGAAAAAGGAGTTTGAAATGACTGATTTAGGTGTGATGAAATACTTTCTAGGTTTGGAGGTGGATCAAAGCTCGAAAGGGATTTTTGTATCCCAAAAGAGATATGCTGAGGAGATACTGAAGAAGGCAAAGATGATGAAGTGCAATCCAGTTTCTACTCCTATGGAACCCGGAACGAAGCTAACCAAATACGGAGATGGATATCGAGTCGACCCAAGCAAGTATCGTAGCCTAATCGGAAGCCTAAGATACTTGACCAACACGAGGCCAGACTTAATGCTAAGCGTGGGGATTACAAGTCGTTTTATGGAGGAACCAAGATATTCTCATTGGAAAGCAGTAAAGCGGATATTAAGGTATGTAAAGGGTACAATATCTTTTGGATTAATGTATACTATGTCAAACAACTACCAGCTTAGTGGATATTCAGATAGTGATTGGTGTGGAGATATTGATGATCGAAAAAGCACGACTGGCTATGTTTTCTTTATGGGAGATACAGCATTTACTTGGCTTTCCAAGAAACAACCTATTGTGACGCTATCGTCATGTGAGGCAGAGTATGTGGCAGCATCCTGGAGTGTCCGACACGCAATTTGGCTAAGAAACCTACTAAAAAGTTTGGAGATGATGCAAGAAGAGAGGGTAGTGATTCGAGTAGATAATAGATCAGCAATCGAGCTAGCAAAAAATCCAGTCTATCATGAAAGAAGCAAGCATATTGATGTTCGTTTTCACTTTATCCGGGAAAAGATAAAAGAAGGAAGTGTTGAGTTAGAACATGTGGGAACTAAACAACAAATTGCAGATATATTCACAAAACCGCTCCCTGCAGTAATATTTCATGAATACAGAAAGCTTATTGGGATGAAGGATAGAAGCATTTGAGTTTATAGGGGAGTTTTGTAGAATAAACTCAAATGGTGCCCACATGTCTTCCACTGCACCAAAAACCTTGTCTGGTTATGAAAAAATCTGCCGAAAGAAATAAAATTATTGAAGGGAGAAATGATAAACCCACCGAAAGTTTTTTTGTTGGCCTGTGATTATCAAATCACCGTTAGTACCTACCATACAAATGCACCGAAAGTGGAATTATTACATTTGCTTTTCCCTTCTATAAATAGACACCCCTATGGGAGACCAGACTTAGACCTCCAAAAACAGAAAATTAGTATTGTATAAGAAGAAGAAAAATAAGTGTTTGTGTCGTGAGAGAGTGTGCAAGTGGAGTGAGAAAATAATATTGTGAGTTCCTAAGAGAAGGAAGTGTTGTCTCTGTACCCTGTATTTCCAACTTTTAAAATAATAAAATTATCTTTGATACCAACA

Gene Sequence:

>Vu_28860(-)