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_34014	LG10	4708563	4710455	hypothetical protein LR48	Map

Annotations

category		relationship type		keyword

SNP	Position	Effect	Amino acid change
A/T	4708563	initiator_codon_variant	p.Met1?
G/C	4708592	synonymous_variant	p.Leu10Leu
A/G	4708594	missense_variant	p.Asn11Ser
G/C	4708596	missense_variant	p.Gly12Arg
G/A	4708597	missense_variant	p.Gly12Asp
C/G	4708603	missense_variant	p.Pro14Arg
A/G	4708605	missense_variant	p.Lys15Glu
T/A	4708649	synonymous_variant	p.Thr29Thr
C/T	4708666	missense_variant	p.Ser35Phe
A/C	4708690	missense_variant	p.Asn43Thr
A/G	4708692	missense_variant	p.Ile44Val
T/C	4708719	missense_variant	p.Ser53Pro
A/T	4708724	synonymous_variant	p.Gly54Gly
A/T,G	4708726	missense_variant	p.Tyr55Cys
C/A	4708738	missense_variant	p.Ser59Tyr
G/C	4708742	synonymous_variant	p.Ser60Ser
C/T	4708746	missense_variant	p.Arg62Cys
G/A	4708747	missense_variant	p.Arg62His
T/G	4708751	missense_variant	p.Asn63Lys
A/T	4708756	missense_variant	p.Glu65Val
T/C	4708768	missense_variant	p.Ile69Thr
C/A	4708770	missense_variant	p.Arg70Ser
G/C	4708771	missense_variant	p.Arg70Pro
T/A	4708772	synonymous_variant	p.Arg70Arg
C/T	4708777	missense_variant	p.Thr72Ile
C/T	4708797	missense_variant	p.Pro79Ser
G/A	4708802	synonymous_variant	p.Ser80Ser
C/G	4708816	missense_variant	p.Ala85Gly
C/A,*	4708828	missense_variant	p.Pro89His
T/C	4708829	synonymous_variant	p.Pro89Pro
A/G,*	4708897	missense_variant	p.Asn112Ser
C/T,G	4708901	synonymous_variant	p.Leu113Leu
G/T,*	4708914	missense_variant	p.Asp118Tyr
A/T,*	4708915	missense_variant	p.Asp118Val
C/T	4708916	synonymous_variant	p.Asp118Asp
A/G	4708921	missense_variant	p.Glu120Gly
G/C	4708936	missense_variant	p.Ser125Thr
C/G	4708971	missense_variant	p.Gln137Glu
C/T	4708985	synonymous_variant	p.Ile141Ile
G/C	4708986	missense_variant	p.Gly142Arg
G/A	4708987	missense_variant	p.Gly142Glu
G/A	4708998	missense_variant	p.Asp146Asn
G/A	4709024	synonymous_variant	p.Thr154Thr
C/T	4709032	missense_variant	p.Pro157Leu
G/C	4709037	missense_variant	p.Asp159His
A/G	4709038	missense_variant	p.Asp159Gly
C/T	4709040	missense_variant	p.Leu160Phe
C/T	4709075	synonymous_variant	p.Leu171Leu
A/T	4709085	missense_variant	p.Thr175Ser
T/G	4709093	missense_variant	p.Phe177Leu
T/C	4709099	synonymous_variant	p.Asn179Asn
T/G	4709100	missense_variant	p.Phe180Val
G/A	4709112	missense_variant	p.Glu184Lys
G/A	4709114	synonymous_variant	p.Glu184Glu
G/T	4709120	synonymous_variant	p.Thr186Thr
G/A	4709133	missense_variant	p.Ala191Thr
C/A	4709160	missense_variant	p.Arg200Ser
G/A	4709161	missense_variant	p.Arg200His
T/A	4709169	missense_variant	p.Trp203Arg
G/T	4709170	missense_variant	p.Trp203Leu
C/G	4709182	missense_variant	p.Thr207Ser
A/G	4709232	missense_variant	p.Thr224Ala
T/A	4709235	missense_variant	p.Tyr225Asn
C/A	4709237	stop_gained	p.Tyr225*
G/A	4709287	missense_variant	p.Arg242Lys
A/G	4709288	synonymous_variant	p.Arg242Arg
A/C,G	4709302	missense_variant	p.Tyr247Ser
G/C	4709308	missense_variant	p.Cys249Ser
A/T	4709312	missense_variant	p.Leu250Phe
G/A	4709314	missense_variant	p.Arg251Lys
T/C	4709316	synonymous_variant	p.Leu252Leu
A/G	4709318	synonymous_variant	p.Leu252Leu
C/T	4709338	missense_variant	p.Thr259Met
C/A	4709344	missense_variant	p.Pro261Gln
G/A	4709346	missense_variant	p.Ala262Thr
T/G	4709358	missense_variant	p.Ser266Ala
T/C	4709384	synonymous_variant	p.Ala274Ala
T/A	4709393	missense_variant	p.Asp277Glu
A/G	4709405	synonymous_variant	p.Ser281Ser
A/G	4709410	missense_variant	p.Asp283Gly
T/G	4709423	missense_variant	p.Asn287Lys
A/T	4709447	missense_variant	p.Lys295Asn
G/C	4709449	missense_variant	p.Cys296Ser
A/T	4709451	missense_variant	p.Arg297Trp
G/C	4709452	missense_variant	p.Arg297Thr
G/T	4709453	missense_variant	p.Arg297Ser
A/G	4709462	synonymous_variant	p.Glu300Glu
C/T	4709468	synonymous_variant	p.Leu302Leu
T/C	4709474	synonymous_variant	p.Asn304Asn
T/C	4709477	synonymous_variant	p.Ser305Ser
G/C	4709516	synonymous_variant	p.Ser318Ser
A/G	4709519	synonymous_variant	p.Gly319Gly
G/T	4709523	missense_variant	p.Ala321Ser
A/T	4709546	synonymous_variant	p.Thr328Thr
G/A	4709554	missense_variant	p.Gly331Asp
A/T,G	4709556	missense_variant	p.Ser332Gly
C/T	4709559	synonymous_variant	p.Leu333Leu
G/T	4709564	synonymous_variant	p.Ser334Ser
C/A,T	4709577	missense_variant	p.Leu339Met
C/A	4709600	synonymous_variant	p.Ile346Ile
A/G	4709615	synonymous_variant	p.Glu351Glu
A/G	4709633	synonymous_variant	p.Ser357Ser
A/G	4709645	synonymous_variant	p.Ser361Ser
T/C	4709646	missense_variant	p.Phe362Leu
G/A	4709654	synonymous_variant	p.Leu364Leu
T/C	4709657	synonymous_variant	p.Ser365Ser
C/T	4709660	synonymous_variant	p.Asp366Asp
C/G	4709662	missense_variant	p.Ser367Cys
G/T	4709690	missense_variant	p.Met376Ile
A/G	4709765	synonymous_variant	p.Ser401Ser
G/A	4709826	missense_variant	p.Ala422Thr
G/T	4709841	stop_gained	p.Glu427*
G/A	4709844	missense_variant	p.Glu428Lys
C/G	4709868	missense_variant	p.His436Asp
G/T	4709871	missense_variant	p.Asp437Tyr
A/G	4709874	missense_variant	p.Thr438Ala
G/C	4709882	missense_variant	p.Arg440Ser
G/A	4709888	synonymous_variant	p.Val442Val
C/G	4709908	missense_variant	p.Thr449Ser
G/A	4709910	missense_variant	p.Ala450Thr
A/C	4709912	synonymous_variant	p.Ala450Ala
T/C	4709930	synonymous_variant	p.Pro456Pro
C/T	4709936	synonymous_variant	p.Arg458Arg
A/G	4709937	missense_variant	p.Ser459Gly
G/A	4709938	missense_variant	p.Ser459Asn
G/A	4709940	missense_variant	p.Glu460Lys
A/G	4709942	synonymous_variant	p.Glu460Glu
A/C,T	4709946	missense_variant	p.Ser462Arg
G/C	4709947	missense_variant	p.Ser462Thr
T/C	4709948	synonymous_variant	p.Ser462Ser
A/T	4709951	synonymous_variant	p.Ser463Ser
A/T	4709955	missense_variant	p.Ser465Cys
G/C	4709956	missense_variant	p.Ser465Thr
T/C	4709963	synonymous_variant	p.Asn467Asn
A/C	4709973	missense_variant	p.Ser471Arg
T/C	4709975	synonymous_variant	p.Ser471Ser
C/T	4709984	synonymous_variant	p.Ser474Ser
T/C	4710023	synonymous_variant	p.Phe487Phe
G/C	4710037	missense_variant	p.Ser492Thr
C/G	4710038	missense_variant	p.Ser492Arg
C/A	4710045	missense_variant	p.Arg495Ser
G/T	4710046	missense_variant	p.Arg495Leu
A/G	4710049	missense_variant	p.Asn496Ser
C/A	4710075	missense_variant	p.Arg505Ser
T/C	4710109	missense_variant	p.Ile516Thr
T/G	4710113	missense_variant	p.His517Gln
G/A	4710123	missense_variant	p.Asp521Asn
A/G	4710124	missense_variant	p.Asp521Gly
G/A	4710126	missense_variant	p.Asp522Asn
T/A	4710133	missense_variant	p.Val524Glu
C/T	4710135	synonymous_variant	p.Leu525Leu
G/A,C	4710140	missense_variant	p.Met526Ile
T/A	4710152	missense_variant	p.Asn530Lys
G/A	4710160	missense_variant	p.Gly533Asp
G/A	4710212	synonymous_variant	p.Leu550Leu
G/A	4710213	missense_variant	p.Glu551Lys
C/T	4710220	missense_variant	p.Pro553Leu
G/C	4710226	missense_variant	p.Arg555Thr
A/G	4710243	missense_variant	p.Arg561Gly
G/C	4710250	missense_variant	p.Cys563Ser
A/G	4710255	missense_variant	p.Thr565Ala
T/C	4710272	synonymous_variant	p.Phe570Phe
T/G	4710275	missense_variant	p.Asp571Glu
T/C	4710278	synonymous_variant	p.Ile572Ile
A/G	4710306	missense_variant	p.Arg582Gly
A/T,G	4710310	missense_variant	p.Glu583Gly
T/G	4710314	missense_variant	p.Ile584Met
A/G	4710315	missense_variant	p.Met585Val
G/A	4710318	missense_variant	p.Gly586Arg
T/C	4710325	missense_variant	p.Phe588Ser
G/A	4710328	missense_variant	p.Arg589Gln
T/A	4710337	missense_variant	p.Val592Glu
A/C	4710374	missense_variant	p.Arg604Ser
C/G	4710379	missense_variant	p.Ala606Gly
A/G	4710385	missense_variant	p.Asn608Ser
G/C	4710391	missense_variant	p.Gly610Ala
G/C	4710393	missense_variant	p.Glu611Gln
C/T	4710409	missense_variant	p.Thr616Ile
A/G,C	4710416	missense_variant	p.Glu618Asp
A/G	4710446	synonymous_variant	p.Leu628Leu
G/C	4710449	synonymous_variant	p.Val629Val

View accession wise SNPs

Sequence Details:

Protein Sequence:
>Vu_34014.1

MSPNIEEIILNGCPKLIKVHSSIFLNKLTCLRLESCRDLRSVNIPSNILSRSSGYILLSSCRNLEMFSIRQTQICYSPPSSSLIAPIFPHDKLERQLQTGLSLEAHFARNENLLISYDSEIFSISFDGYWEADEEKQVTDIGGFIDLSKCSSLTIFPFDLSEMKFLKKLCLSGCTKFENFPEIEDTMENLAVGLQELSLRSCWNLETIPSSIGRLTRLCKLDLTYCESLQTFPSTIFKLKLRKLDLYGCLRLRTFPEITEPAQTFSHINLTETAIKDLPSSFDNLVNLRSLQLNKCRDLESLPNSIVNLKHLCKLDCSGCAKLTEIPTHIGSLSSLMELSLSESGIVNLPESIAHLSSLKSFDLSDSKNLECIPQMPPFLKQLVALDCPSIRQVMSNRNLSESKEGVFKFHFTNAQQLDSGARANIEEDARLRMTHDTYRSVFFCFPGTAVPHWFPFRSEGSSVSINEDLSFCSDDRLIGFALCVVFGLLDSNDRNGRRGSFSYRLKLESDDDDDIHIISDDDVLMNYFNWNGKERVVNQDHTFMWKFNLESPRRSGMSLRLCDTRSFTFDISRHWNPQDYREIMGEFRSVVTIKECGLCPLYRSASNVGESSRETKEDRKRKTESYLVG*

CDS Sequence:
>Vu_34014.1

ATGTCACCAAATATTGAAGAAATAATTCTGAATGGTTGTCCAAAGTTGATTAAAGTTCACTCTTCCATATTCCTTAACAAGCTCACTTGTTTACGTTTAGAATCTTGTAGAGATTTGAGGAGTGTAAATATTCCCAGCAATATTCTATCCAGATCATCAGGATACATTCTTCTTTCCTCGTGTCGCAATCTTGAAATGTTTTCAATCCGTCAAACCCAAATATGTTATTCTCCACCATCGTCATCATTAATCGCTCCAATATTCCCTCATGACAAACTGGAGCGTCAATTGCAAACTGGACTTTCCTTAGAGGCGCACTTTGCTAGAAATGAAAATCTCTTAATATCCTATGACAGTGAAATTTTCTCCATTAGTTTTGACGGATATTGGGAAGCAGATGAAGAAAAACAAGTAACGGATATCGGAGGTTTCATAGATCTCTCGAAATGTTCTTCCCTTACGATATTTCCATTTGACCTTTCTGAGATGAAATTCCTAAAGAAACTTTGTCTCAGTGGTTGCACAAAATTTGAAAATTTCCCCGAGATTGAGGACACGATGGAAAATTTAGCGGTAGGGCTTCAAGAACTGAGTTTGCGCAGTTGCTGGAATCTTGAGACTATTCCATCTTCCATTGGAAGGCTCACCAGACTATGCAAGTTAGACCTTACCTACTGTGAATCACTTCAAACTTTTCCAAGCACCATTTTCAAATTGAAGTTGAGAAAACTTGATTTGTATGGTTGCTTAAGGTTAAGGACCTTCCCAGAGATCACGGAGCCGGCACAAACTTTTTCTCACATAAACTTAACAGAAACGGCTATCAAAGATCTGCCTTCCTCATTTGACAATTTGGTTAATCTTCGATCCCTGCAGCTCAACAAATGCAGGGATCTCGAATCACTCCCAAATTCTATTGTTAATCTAAAGCATCTCTGTAAACTTGATTGTTCGGGATGTGCCAAATTAACAGAAATCCCAACACACATTGGTAGCCTGTCGTCATTAATGGAACTGTCACTGAGTGAGAGCGGAATCGTGAACCTTCCTGAAAGCATTGCTCATCTTTCAAGCTTGAAATCATTTGATTTGAGTGACTCCAAAAATCTTGAATGCATCCCACAGATGCCACCGTTTCTAAAACAACTGGTGGCATTGGATTGCCCATCCATTAGACAAGTGATGTCAAATCGAAACCTCTCAGAGTCGAAGGAGGGTGTCTTCAAATTTCATTTCACCAATGCCCAACAACTGGATTCAGGTGCTCGTGCTAACATTGAGGAGGATGCAAGGCTCAGGATGACCCACGATACATATAGGTCTGTGTTCTTCTGTTTTCCAGGGACTGCAGTTCCTCATTGGTTCCCTTTTCGCAGCGAAGGAAGTTCAGTGAGTATAAATGAAGATTTAAGTTTCTGCAGCGATGACAGGCTCATTGGTTTCGCTTTGTGTGTGGTTTTTGGATTGTTAGATAGCAATGATCGTAATGGTAGACGTGGTTCTTTTAGTTACCGCCTAAAATTGGAATCTGATGATGATGATGATATACATATTATTTCAGATGATGATGTGCTAATGAACTATTTCAATTGGAATGGTAAAGAGAGAGTTGTCAATCAAGATCACACATTCATGTGGAAATTTAACTTGGAGTCCCCAAGGAGGAGCGGCATGAGCCTTAGGCTCTGTGATACTCGAAGCTTCACTTTTGATATTAGTCGTCACTGGAATCCTCAAGATTACAGAGAAATTATGGGAGAGTTCCGATCAGTTGTGACAATAAAAGAATGCGGCTTATGCCCTCTTTATAGAAGCGCAAGCAATGTTGGAGAGTCTTCAAGGGAAACAAAGGAAGATAGGAAGAGGAAAACAGAAAGCTACTTAGTGGGCTAG

Promoter Sequence:
>Vu_34014::LG10:4706563-4708563(+)

NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTTAAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATAAAAAATTTGAACAATCACTTAATTAAATAAATTTAAATGTATTAAAGACTTCAACTTAATTAATAATTTTTTTTTATTATCATATAAGTTCAATATAACCTATAATAAATTATGTATTTAATAAATCACCGAAATATGGATTTATATATTGTCTGCATCACTTAACATTAACACACAATCTTTCTAAAGTTCAATTTTAACTCACTTTGTCAGTTTATTCTTATTCTCATTTAAATTTTTACAATATAATTTTATTAGAAAAAAAGAAGAGAGACGAGATAAGATAAATAAAGATAAATAGTTGATACATGCATAATATAAAGTATTTCTACATTGTCATCTATTATAAATTACTTTCATCAGCTTGAAATTATTAGGATGTAAACTTAGATAGGAAAGAAAACATGTTAAATTTTGTGAATTTTTATAATAACTATCAAATTCATAGCCACTGTAATTGTTTAACGTAAACTCAACCGATAATTATGTAAGTAGGAGTTTATTGAAGAAAAGTAAATAAGCTTCATTTTAGTTTTTCTTTATTACCTGATTCATTTCCTTTTTGTGGCAGAGTTTACCCAAGTTGAAAAGGCTCAACTTGAGTTATTCTAAGAAACTTACTAGAATACAAGACCTTTCCA

Gene Sequence:

>Vu_34014(+)