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_09985	LG2	39091026	39094669	PREDICTED: scarecrow-like protein 1	Map

Annotations

category		relationship type		keyword

SNP	Position	Effect	Amino acid change
G/A	39091138	3_prime_UTR_variant
C/A	39091383	missense_variant	p.Trp517Cys
A/G	39091422	synonymous_variant	p.Gly504Gly
G/T	39091548	synonymous_variant	p.Ala462Ala
G/A	39091695	synonymous_variant	p.His413His
C/A	39091935	synonymous_variant	p.Leu333Leu
A/T	39092200	missense_variant	p.Ile245Asn
G/A	39092479	missense_variant	p.Ala152Val
A/T	39092486	missense_variant	p.Phe150Ile
G/A	39092490	synonymous_variant	p.Asp148Asp
A/T	39092502	synonymous_variant	p.Leu144Leu
C/T	39092508	synonymous_variant	p.Glu142Glu
G/A	39092526	synonymous_variant	p.Asp136Asp
C/A	39092607	missense_variant	p.Glu109Asp
T/A	39092619	synonymous_variant	p.Ser105Ser
A/G	39092653	missense_variant	p.Val94Ala
G/A	39092707	missense_variant	p.Ser76Leu
G/A	39092723	stop_gained	p.Gln71*
C/T	39092736	synonymous_variant	p.Val66Val
G/A	39092743	missense_variant	p.Pro64Leu
T/C	39092758	missense_variant	p.Glu59Gly
G/A	39092769	synonymous_variant	p.Ser55Ser
A/G	39092785	missense_variant	p.Ile50Thr
G/T,*	39092800	missense_variant	p.Pro45Gln
T/G	39092810	missense_variant	p.Asn42His
C/T	39092831	missense_variant	p.Glu35Lys
C/T	39092833	missense_variant	p.Ser34Asn
A/G	39092840	missense_variant	p.Tyr32His
G/A	39092875	missense_variant	p.Pro20Leu
C/A	39092879	missense_variant	p.Gly19Cys
G/A	39092898	synonymous_variant	p.Gly12Gly
C/T	39092912	missense_variant	p.Asp8Asn
G/C	39092968	intron_variant
T/C	39092982	intron_variant
T/A	39092995	intron_variant
A/C	39093000	intron_variant
A/T	39093017	intron_variant
T/C	39093023	intron_variant
T/C	39093069	5_prime_UTR_variant
G/A	39093073	5_prime_UTR_premature_start_codon_gain_variant
G/A	39093077	5_prime_UTR_variant
C/T	39093078	5_prime_UTR_variant
T/A	39093168	intron_variant
G/C	39093252	intron_variant
C/T	39093263	intron_variant
C/T	39093360	intron_variant
A/C	39093382	intron_variant
C/T,*	39093423	intron_variant
G/A	39093443	intron_variant
G/A	39093457	intron_variant
A/G	39093489	intron_variant
G/A	39093509	intron_variant
T/A	39093678	intron_variant
C/A	39093736	intron_variant
C/G	39093738	intron_variant
G/A	39093748	intron_variant
A/G	39093760	intron_variant
A/C	39093772	intron_variant
C/A	39093773	intron_variant
T/A	39093778	intron_variant
A/G	39093816	intron_variant
T/C	39093828	intron_variant
T/C	39093842	intron_variant
C/T	39093867	intron_variant
T/C	39093936	splice_region_variant
C/A	39093950	5_prime_UTR_variant
T/C	39094162	5_prime_UTR_variant
A/T	39094171	5_prime_UTR_variant
C/T	39094195	5_prime_UTR_variant
A/T	39094377	upstream_gene_variant
A/C	39094426	5_prime_UTR_premature_start_codon_gain_variant
A/T	39094436	5_prime_UTR_variant
C/G	39094625	5_prime_UTR_variant
C/A	39094628	5_prime_UTR_variant
T/C	39094636	5_prime_UTR_variant

View accession wise SNPs

Sequence Details:

Protein Sequence:
>Vu_09985.2

MSLVRSADVRPGLSSQIFGPDKHRSMYMTDSYSSESYEKYFNDSPTEELIEPSNSSISESSIPPDVASSYQLTASSEASVVANNPFDCSFMSTVTHDVYEANYGSDLMENGSLDSRENDGLMSLKLQALERALLDDSEAEEEELEEEDIFEAVQSMEIDPDIAEWSDSMQNMVLHDSPKEYSSSDSSISSIVSSTKEISQISQTPKQLLYECAIALSEGNEEEGSSMINNLRQMVSIQGEPSQRIAAYMVEGLAARLAESGKSIYKALRCKEPPSSDRLAAMQILFEVCPCFKFGFIAANNAITEAVKDDMNIHIIDFDINQGSQYINLIQTLASRSSKPPYVRLTGVDDPESVQRSVGGLKNIGQRLEKLAEALGLPFEFRAVASRTSIVTPSMLNCSPGEALVVNFAFQLHHMPDESVSTVNERDQLLRLVKSLNPKLVTVVEQDVNTNTTPFLPRFVEAYNYYSAVFESLDVTLPRESQDRMNVERQCLARDIVNVVACEGEDRIERYEVAGKWRARITMAGFTSSPMSTNVTDEIRNLIKVMYCDRYKIKEEMGALHFGWEDKNLIVASAWKLPR*

>Vu_09985.1

CDS Sequence:
>Vu_09985.2

ATGTCATTAGTTAGGTCTGCTGATGTTAGACCAGGCTTGTCCTCTCAAATTTTTGGTCCTGATAAGCATAGGAGCATGTACATGACAGATTCTTACTCCAGCGAGAGTTATGAGAAGTACTTCAATGACTCTCCAACAGAAGAACTGATAGAACCATCTAACTCCAGCATCTCTGAAAGTTCAATCCCCCCTGATGTGGCCTCTTCTTACCAGCTTACGGCCAGTTCAGAAGCTTCTGTGGTTGCCAATAACCCATTTGATTGTTCTTTCATGTCCACAGTGACACACGATGTTTATGAGGCAAACTATGGATCAGATTTGATGGAGAATGGAAGCCTCGATTCCCGTGAAAATGATGGTCTAATGAGTTTAAAACTACAAGCATTGGAGAGGGCATTGCTTGATGACAGTGAGGCTGAGGAGGAGGAGCTTGAAGAGGAAGACATATTTGAGGCTGTTCAAAGCATGGAAATTGATCCAGACATTGCAGAGTGGTCTGATTCCATGCAGAATATGGTCCTCCATGATTCACCAAAGGAGTACTCTTCTTCAGATTCCAGCATCAGCAGCATCGTCAGCAGCACCAAAGAAATATCACAAATTTCTCAGACCCCAAAGCAGCTGCTTTATGAATGTGCTATTGCACTTTCAGAAGGAAACGAAGAGGAAGGATCATCCATGATAAACAATCTCAGACAGATGGTGTCAATTCAAGGAGAGCCTTCTCAAAGAATTGCAGCCTATATGGTTGAGGGGCTAGCAGCTCGCCTAGCGGAATCCGGCAAAAGTATTTACAAAGCTCTGAGATGCAAGGAACCACCTTCTTCAGATCGTCTAGCAGCCATGCAGATACTGTTTGAGGTTTGCCCATGTTTCAAATTTGGATTTATTGCTGCTAACAATGCAATTACAGAAGCAGTGAAAGATGACATGAACATTCATATCATAGACTTTGACATCAACCAAGGAAGTCAGTACATTAATCTAATCCAAACACTGGCTTCAAGGTCAAGTAAGCCACCCTATGTTAGATTGACTGGGGTTGATGATCCTGAGTCTGTGCAGCGATCTGTTGGAGGCCTAAAGAACATAGGACAAAGACTAGAAAAACTGGCAGAGGCACTTGGTCTGCCATTTGAGTTCCGAGCAGTGGCATCAAGGACTTCCATTGTCACCCCATCAATGCTCAACTGTAGTCCTGGGGAAGCACTTGTGGTGAACTTTGCATTCCAGCTTCACCACATGCCTGATGAGAGTGTTTCAACAGTAAACGAACGGGACCAACTTCTTCGTTTGGTGAAGAGCTTGAATCCAAAGCTTGTGACAGTTGTGGAGCAAGATGTGAACACAAACACTACCCCCTTCTTGCCTAGATTTGTTGAAGCCTACAATTACTACTCTGCTGTGTTTGAGTCACTTGATGTTACCCTTCCAAGAGAAAGCCAGGACAGGATGAATGTTGAAAGGCAATGCTTGGCCAGAGACATTGTCAATGTTGTTGCATGTGAGGGTGAGGATAGGATAGAACGATATGAAGTGGCAGGAAAATGGAGAGCAAGGATCACAATGGCTGGCTTCACTTCATCTCCAATGAGCACAAATGTGACTGATGAAATCAGAAACCTCATTAAGGTGATGTATTGTGACAGGTACAAGATTAAGGAGGAAATGGGTGCACTTCACTTTGGTTGGGAAGACAAAAACTTGATCGTTGCTTCGGCATGGAAGTTACCAAGATAA

>Vu_09985.1

Promoter Sequence:
>Vu_09985::LG2:39094669-39096669(-)

TTTTAAAATATTAAAATACAAGTTTAAAAATTTAGTAAAAATAAGAAATATCTTTCAAAAGGTAAACTTATATTCTAACCATTTTATTTAGTTATATATTCTCACCCAGTACCCTTTTCCCACCAATATGTAATTTTCATTTAATTGTAACCATTATAACTAAACAGCACTTTAAGATTGGTCTTCTCTTCTAAAAAATGTATTTAAGGAAAATCAAAGTCTTGCTATATGCAGGAAGTAAAGTCCAAAGTTGGGAAAGAAGAGGACCCTCCTAACTCTGACTCTGTCAACAAGTACAAAATCTTGCTCATTTCACGTTACTATTTTCAATGTTTTAGCTATTATAAAAATGAAAGTTGCAACATTCCCTTCCATCACATTCCACGCCTGAAAATGGAGCAGTGACGTTGTATGACGTGAGACCCTACGTCAATACGCACAGTAAAATAAATGAATCTCTTCCGAGAGACTTATTTGTACCATATACTTGATGATTGAGTGAGAATTTCATCTATTGTTTATGTATGGAAGATTTGAAGTCAGTATTAACATTAAGACTAGACATATTTAGAATGAAAGAAACGTAGGGGTAAAGGAGAAGCAACATTGTGCAAAATGCATCCAAGTCTTGTTACTTTTTAATGGAAGTCTTTGATGAGTTTTCCACTTGCTTGCCACTACCAAATTCCAGAAGCTCGGCTTTTCTTAAAGTAAATTACATATCAGAGTTCTGTTCATAAAGAGACTGGTCAAAGAATCAAGAAATAATCTTTTAAAAAAAATACTCATAAAAATATTTGCTATATCAAAAGAATATCTTTATTACCCGTTTTTACTTATGTTAAAATATTCAGCAAACCATGAAGAAAGAAACAGTATTTAGAGAATAACTTTCAGATGAAAAAGTGAAAAGAAAAAAATAACTTATCTGTGTTAATTTGTAAAAAAAAAATCTTTTATTTTTGGTTTAATGTCTCAATAGGTCCCTATTTTTGTTCAGAATTTGAAATAGGTCCCTTTATTTTTTGGCGTCTCAATTGGGTCCTTATTTTTGTTAATTTGATGCAAATAAATCATTTCCGTCAATTTCATTAAACGGCGTTAATGAATGTGTGACGTGGCCTTACACGTGTCAATACTGTCCTCAGGCCACGTCACACATTTATTAACGCCGTTTGATGAAATTGACGGAAAGGATTTATTTGCATCAAATTAACAAAAATAAGGACCCAATTGAGATGCCAAAAAATAAATGGATCTATTTCAAATTTTGAACAAAAATAGAGACCTATTAAGACATTAAACCTTTATTTTTTAATTTGTGAATAAATTAATTTAAATTCGCAGAGAATTTTATTCTATTTCTCTTTCTTCTAAATCTTTTTGAGGAGTTCCCCGAATGCAGAAAGAGAATAAATAAAAGTATAAGAATGATAAATAATACAACGTAGTAAGAGAAAAATATAAAATAAAAAAAATTAGAGATGTTATTACTGTAAGAGTGTTGCAGAAACAGGTGTCGTAGTGACAGAAGTGGTTCCAGGTCTGTCAAGATAACCTGTTACCTCTTAATTAATTAGTGTGAATGAATATGACTAATTTCTCTTCCCAAGATTTTCCTGTGTTATTATCTATGTTATAACTTCAAAATTGAAATAAAAAGTTTAGATAAAGTCTCCAAAGGTGTATGTTAAACTTTGTTCAGCTTTTTAAAGTCTATATTAATCGCGGAGATCAACAACGAATAAATGAATAGTAATTCTAATTAAGTGATTTCAGTAGCATTTATCTTTCTAAAGAGAAGTTTTCTTTTTTTTCATTTTGAAATTATTTGAACGCATCCTTAAAGAAACATGTAATGTAATTTCCACTGTTTTTCTATTAAGGTTGTTGAATTCCTTCCATATTTTGGTCCAATCATTATGAGTTTCAAAGGTTTTTCCTTCAGTTCTAAACAGTTACTTAACAGTATATATAGGTTCTCAAAGCTCCCACTTGTT

Gene Sequence:

>Vu_09985(-)

AATCTTGGCATTTGTCTTATTTGTTGCGATTCCACCAACCTGAAGTCCTAATCCACCAACTTTCTTCTGTAGAAAACTGTTAAACTGTGTTATTGCTATTTGGCTTGGCTATATCTCTATGACACTAGTCAAAGACCTATTCTAACCTCTCTACTCTCTCTAAACACAGTTCTGAGATTCATACTCATCTGTCTCTGTACACAGTGGCAGGGTAGGAAGACTGCTATGGTCTGTCTGCTTCTTTCTTTCTAATTCCACAGGTACCCTTCCTCCCTGTGGTCATTCATCTTAATTTCCATCAACAAAATCTATATCATGTGTTTTAAATACTGAAACTTATTGCTCCTTCTGATGAATGGTACTATCTGTTGCAGTCCTAGTAAACTGATTTCAATCTGCAGCAGCAGATGATACGTGTTATATAGAGTGATGCATGCATGTGATTGCAAAAAAAAAATGTGAAAGAAGGCTTTAGTCCTTCCTCTTAGATGATATTTGTTAAAATTCAATCTTCTAAGAAAGTTTTTAACTTTTCCTTGTACATGTCTCTGGTCCCATGTTTTGTTAATTCTTTTCTGTTACTGTCACTTGATCTATCTACTCGTATACTGGGCTACAATTTCAAACGAGTTGTCTTACAAAATATGCTGTGGATCCTCACTGGATACAGTGGATTTTGAGGCCGGTGATTCTCCCAGCTAAAGACAAATAAAGATATAGATGCTATCAAGAGAGTTAGTATTTGCAGTAGGAATTTCATTTCAATTTGATTTCTGGCTTGAGTCAACATATATCATGTTGCGTATCTCTTCAATTTGAACGTGTAAAGAATCATCGAACAATTTTGTTGTTTTTCCTTTTGGTTTCCGGAGCATGTGATTTGATTTCAAGAGTGTGTTTTTATTTTTATGGGATCGGATTCTAGAATCTGGAGATTGCAGATAGAAGATCATAGTTTAAATGATAAAGCAAAGAAGAGGTTTTTAATATTAATTTTACTTTTCCAAATACAGAGGAGACCAATATGATAGGTATAATGGTATTTGCTATGTTAAGGTGGAATTTTACCTGTCATGTCAACTCATCAACTCATGTAACTCATGTATGACTGGATCCAGTAACTTTTATTTTTAAAAACACATTTGAAATCTCGTGGTTGGCCGAGTAGGATAATATTCAGTACTTGAACAATTTCAACCATGGTGATTCATCCGAGAATCAAGTAGCACCAAATCCTCTTTTCATTGCCACACTGATATGACTGATTCAATTTTACAGATGAGAAAATATACTTGCACAAGTTATGTGAGAGATATTCTTAATCTGGAACACGATTTTTTTCATGTAAAAAACTTATGTGAATTTGAACAGGATGAATCATCCAACTGATTTATGATGGCTTTACTGTATTTGTTGACTGAGGCAACAAAACTCACCAGTGTTTCTAGTATTTTTTTTCTTTTTCCTATTCACATAGATTAATAGTTCTGCCTGAAAGTTCACCTGCTTTTTTTTTCTTATTCTTTTGTTTCTCTTACCAGATTATAGTCATCCTAGAAGGTTCAACAAGATTACATCACTGAGCAACTCTGCCTGCTGTACTATTTCTCAAGGTGTGTAAGGAAAAATATATATTTATAGTTCTTATTTACTACAGATTTCAAAGAATTTTACAGGCTCATTATTTATGTTTCTATAAGCCTAAAATTCTGCTTGAATTGTATAACAGGCGAATCATGTCATTAGTTAGGTCTGCTGATGTTAGACCAGGCTTGTCCTCTCAAATTTTTGGTCCTGATAAGCATAGGAGCATGTACATGACAGATTCTTACTCCAGCGAGAGTTATGAGAAGTACTTCAATGACTCTCCAACAGAAGAACTGATAGAACCATCTAACTCCAGCATCTCTGAAAGTTCAATCCCCCCTGATGTGGCCTCTTCTTACCAGCTTACGGCCAGTTCAGAAGCTTCTGTGGTTGCCAATAACCCATTTGATTGTTCTTTCATGTCCACAGTGACACACGATGTTTATGAGGCAAACTATGGATCAGATTTGATGGAGAATGGAAGCCTCGATTCCCGTGAAAATGATGGTCTAATGAGTTTAAAACTACAAGCATTGGAGAGGGCATTGCTTGATGACAGTGAGGCTGAGGAGGAGGAGCTTGAAGAGGAAGACATATTTGAGGCTGTTCAAAGCATGGAAATTGATCCAGACATTGCAGAGTGGTCTGATTCCATGCAGAATATGGTCCTCCATGATTCACCAAAGGAGTACTCTTCTTCAGATTCCAGCATCAGCAGCATCGTCAGCAGCACCAAAGAAATATCACAAATTTCTCAGACCCCAAAGCAGCTGCTTTATGAATGTGCTATTGCACTTTCAGAAGGAAACGAAGAGGAAGGATCATCCATGATAAACAATCTCAGACAGATGGTGTCAATTCAAGGAGAGCCTTCTCAAAGAATTGCAGCCTATATGGTTGAGGGGCTAGCAGCTCGCCTAGCGGAATCCGGCAAAAGTATTTACAAAGCTCTGAGATGCAAGGAACCACCTTCTTCAGATCGTCTAGCAGCCATGCAGATACTGTTTGAGGTTTGCCCATGTTTCAAATTTGGATTTATTGCTGCTAACAATGCAATTACAGAAGCAGTGAAAGATGACATGAACATTCATATCATAGACTTTGACATCAACCAAGGAAGTCAGTACATTAATCTAATCCAAACACTGGCTTCAAGGTCAAGTAAGCCACCCTATGTTAGATTGACTGGGGTTGATGATCCTGAGTCTGTGCAGCGATCTGTTGGAGGCCTAAAGAACATAGGACAAAGACTAGAAAAACTGGCAGAGGCACTTGGTCTGCCATTTGAGTTCCGAGCAGTGGCATCAAGGACTTCCATTGTCACCCCATCAATGCTCAACTGTAGTCCTGGGGAAGCACTTGTGGTGAACTTTGCATTCCAGCTTCACCACATGCCTGATGAGAGTGTTTCAACAGTAAACGAACGGGACCAACTTCTTCGTTTGGTGAAGAGCTTGAATCCAAAGCTTGTGACAGTTGTGGAGCAAGATGTGAACACAAACACTACCCCCTTCTTGCCTAGATTTGTTGAAGCCTACAATTACTACTCTGCTGTGTTTGAGTCACTTGATGTTACCCTTCCAAGAGAAAGCCAGGACAGGATGAATGTTGAAAGGCAATGCTTGGCCAGAGACATTGTCAATGTTGTTGCATGTGAGGGTGAGGATAGGATAGAACGATATGAAGTGGCAGGAAAATGGAGAGCAAGGATCACAATGGCTGGCTTCACTTCATCTCCAATGAGCACAAATGTGACTGATGAAATCAGAAACCTCATTAAGGTGATGTATTGTGACAGGTACAAGATTAAGGAGGAAATGGGTGCACTTCACTTTGGTTGGGAAGACAAAAACTTGATCGTTGCTTCGGCATGGAAGTTACCAAGATAATGAACTATGTTAGTAGACACACTTATTGTAGTACTGGTAATGTAGTGTTTGCTTGCTTGTTTAGTGTGTAGAATACTTCTGATATTTCTATTCTAGTCTTTGCTTGCTTCTCCACATGTACACACTAACTTACAATCTTAATCTAATAACGACATTTTCATTTTATCT