AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene68136


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene68136.t1 MTR_3g118110 100.000 132 0 0 1 132 64 195 1.56e-95 274
MS.gene68136.t1 MTR_3g109260 75.000 132 30 1 1 132 1 129 1.06e-70 209
MS.gene68136.t1 MTR_3g118110 87.209 86 11 0 1 86 64 149 3.40e-49 155
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene68136.t1 AT1G02140 87.692 130 16 0 3 132 2 131 8.97e-85 244

Find 30 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTTTACTACTTCCAAGAT+TGG 0.348725 3.1:+92850318 MS.gene68136:CDS
TAAAAGATGCGAAGGCCTTC+AGG 0.353524 3.1:-92850372 None:intergenic
CAGGAACTTGAGATTGTTAT+GGG 0.355218 3.1:+92850282 MS.gene68136:CDS
TCAGGAACTTGAGATTGTTA+TGG 0.374992 3.1:+92850281 MS.gene68136:CDS
CGACCAACACGGTCTGGTTC+AGG 0.414314 3.1:-92850258 None:intergenic
GAGATACTACGTTGGTCATA+AGG 0.416637 3.1:+92849942 MS.gene68136:CDS
ATCAACAAGAGAACCAATCT+TGG 0.427300 3.1:-92850331 None:intergenic
ACCAGACCGTGTTGGTCGTC+AGG 0.432239 3.1:+92850263 MS.gene68136:CDS
GTTGGTCATAAGGGTAAATT+CGG 0.435065 3.1:+92849952 MS.gene68136:CDS
TCCTGACGACCAACACGGTC+TGG 0.460919 3.1:-92850264 None:intergenic
ATAAACCTCCTTACGAATGA+TGG 0.480860 3.1:-92850052 None:intergenic
ACCAATCTTGGAAGTAGTAA+AGG 0.483775 3.1:-92850319 None:intergenic
AGATACTACGTTGGTCATAA+GGG 0.498454 3.1:+92849943 MS.gene68136:CDS
TGAAGGAGGATGATAACAAC+TGG 0.499238 3.1:+92850235 MS.gene68136:CDS
GCATAACGAAGCTTACCATC+TGG 0.517649 3.1:-92850003 None:intergenic
CGACACTCACGAAGAACAGC+AGG 0.558457 3.1:-92850081 None:intergenic
TCAACAACAACAGATTATGA+AGG 0.558662 3.1:+92850218 MS.gene68136:intron
GAGTTTGAGTTCCGTCCAGA+TGG 0.565284 3.1:+92849988 MS.gene68136:CDS
CAAGATAGTAAAAGATGCGA+AGG 0.565769 3.1:-92850380 None:intergenic
CAAAATGACAACACATCATG+GGG 0.567092 3.1:-92850684 None:intergenic
CGATACCATCATTCGTAAGG+AGG 0.567991 3.1:+92850047 MS.gene68136:CDS
AAACGATACCATCATTCGTA+AGG 0.579284 3.1:+92850044 MS.gene68136:CDS
CAAAGCAGTGCTGATCCTGA+AGG 0.593679 3.1:+92850357 MS.gene68136:CDS
AACGAAGCTTACCATCTGGA+CGG 0.634567 3.1:-92849999 None:intergenic
ACAACAACAGATTATGAAGG+AGG 0.642882 3.1:+92850221 MS.gene68136:intron
CAAGTTCCTGACGACCAACA+CGG 0.649649 3.1:-92850269 None:intergenic
TGGCCTGAACCAGACCGTGT+TGG 0.677826 3.1:+92850255 MS.gene68136:CDS
TCGTATTATTTCTGACAGCG+AGG 0.703758 3.1:+92850104 MS.gene68136:CDS
AGGAACTTGAGATTGTTATG+GGG 0.708397 3.1:+92850283 MS.gene68136:CDS
AAAATGACAACACATCATGG+GGG 0.747133 3.1:-92850683 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTATAAGCAATAATAAAAA+AGG - chr3.1:92850193-92850212 None:intergenic 15.0%
!! TAAAGTATATTTGTGAATTT+AGG - chr3.1:92850536-92850555 None:intergenic 15.0%
!! AATAATAAAAAAGGAAAAGG+GGG - chr3.1:92850184-92850203 None:intergenic 20.0%
!! AGCAATAATAAAAAAGGAAA+AGG - chr3.1:92850187-92850206 None:intergenic 20.0%
!! CAATAATAAAAAAGGAAAAG+GGG - chr3.1:92850185-92850204 None:intergenic 20.0%
!! GCAATAATAAAAAAGGAAAA+GGG - chr3.1:92850186-92850205 None:intergenic 20.0%
! AAAAAATAACAGCAAAGGAA+TGG - chr3.1:92850632-92850651 None:intergenic 25.0%
! AAAAATAACAGCAAAGGAAT+GGG - chr3.1:92850631-92850650 None:intergenic 25.0%
! ATAATAAAAAAGGAAAAGGG+GGG - chr3.1:92850183-92850202 None:intergenic 25.0%
! CACAAATATACTTTAGACAA+TGG + chr3.1:92850541-92850560 MS.gene68136:intron 25.0%
! CAGTAAAAAAATAACAGCAA+AGG - chr3.1:92850637-92850656 None:intergenic 25.0%
! CATATATTGATACTTTAGCT+GGG + chr3.1:92850567-92850586 MS.gene68136:intron 25.0%
! TATATTTGTGAATTTAGGCA+TGG - chr3.1:92850531-92850550 None:intergenic 25.0%
! TCATATATTGATACTTTAGC+TGG + chr3.1:92850566-92850585 MS.gene68136:intron 25.0%
! TTTGGTATGCTTAAATTTGA+AGG - chr3.1:92850426-92850445 None:intergenic 25.0%
!! AATTTGAGTTAAGTTCATGA+AGG - chr3.1:92850471-92850490 None:intergenic 25.0%
!! TAAATTCGGACATGAATTTT+TGG + chr3.1:92849966-92849985 MS.gene68136:CDS 25.0%
AATGATATATGTAAGTTGCC+AGG - chr3.1:92850501-92850520 None:intergenic 30.0%
TAACTCAAATTAAACTGACC+TGG + chr3.1:92850480-92850499 MS.gene68136:intron 30.0%
TAATAAAAAAGGAAAAGGGG+GGG - chr3.1:92850182-92850201 None:intergenic 30.0%
TCAACAACAACAGATTATGA+AGG + chr3.1:92850218-92850237 MS.gene68136:intron 30.0%
! CATCTTTTACTATCTTGTTC+AGG + chr3.1:92850386-92850405 MS.gene68136:CDS 30.0%
! TTTTACTTGAGATACTACGT+TGG + chr3.1:92849934-92849953 MS.gene68136:CDS 30.0%
!! GATGGTATCGTTTTTGTAAT+TGG - chr3.1:92850037-92850056 None:intergenic 30.0%
AAACGATACCATCATTCGTA+AGG + chr3.1:92850044-92850063 MS.gene68136:CDS 35.0%
ACAACAACAGATTATGAAGG+AGG + chr3.1:92850221-92850240 MS.gene68136:intron 35.0%
ACCAATCTTGGAAGTAGTAA+AGG - chr3.1:92850322-92850341 None:intergenic 35.0%
AGATACTACGTTGGTCATAA+GGG + chr3.1:92849943-92849962 MS.gene68136:CDS 35.0%
AGGAACTTGAGATTGTTATG+GGG + chr3.1:92850283-92850302 MS.gene68136:CDS 35.0%
ATAAACCTCCTTACGAATGA+TGG - chr3.1:92850055-92850074 None:intergenic 35.0%
ATCAACAAGAGAACCAATCT+TGG - chr3.1:92850334-92850353 None:intergenic 35.0%
CAAGATAGTAAAAGATGCGA+AGG - chr3.1:92850383-92850402 None:intergenic 35.0%
CAGGAACTTGAGATTGTTAT+GGG + chr3.1:92850282-92850301 MS.gene68136:CDS 35.0%
GTTGGTCATAAGGGTAAATT+CGG + chr3.1:92849952-92849971 MS.gene68136:CDS 35.0%
TCAGGAACTTGAGATTGTTA+TGG + chr3.1:92850281-92850300 MS.gene68136:CDS 35.0%
TCCTTTACTACTTCCAAGAT+TGG + chr3.1:92850318-92850337 MS.gene68136:CDS 35.0%
! TATCTGTGCTTAAGCAGTTT+TGG - chr3.1:92850444-92850463 None:intergenic 35.0%
! TTTACTGTATTTCTGCAGAG+TGG + chr3.1:92850650-92850669 MS.gene68136:intron 35.0%
GAGATACTACGTTGGTCATA+AGG + chr3.1:92849942-92849961 MS.gene68136:CDS 40.0%
TGAAGGAGGATGATAACAAC+TGG + chr3.1:92850235-92850254 MS.gene68136:CDS 40.0%
TGTGAATTTAGGCATGGTGA+TGG - chr3.1:92850525-92850544 None:intergenic 40.0%
!! TCGTATTATTTCTGACAGCG+AGG + chr3.1:92850104-92850123 MS.gene68136:CDS 40.0%
AACGAAGCTTACCATCTGGA+CGG - chr3.1:92850002-92850021 None:intergenic 45.0%
CGATACCATCATTCGTAAGG+AGG + chr3.1:92850047-92850066 MS.gene68136:CDS 45.0%
GAAAAGGGGGGGTGAAATTA+GGG - chr3.1:92850171-92850190 None:intergenic 45.0%
GCATAACGAAGCTTACCATC+TGG - chr3.1:92850006-92850025 None:intergenic 45.0%
TAAAAGATGCGAAGGCCTTC+AGG - chr3.1:92850375-92850394 None:intergenic 45.0%
CAAGTTCCTGACGACCAACA+CGG - chr3.1:92850272-92850291 None:intergenic 50.0%
GGAAAAGGGGGGGTGAAATT+AGG - chr3.1:92850172-92850191 None:intergenic 50.0%
GGGGGGTGAAATTAGGGTTA+GGG - chr3.1:92850165-92850184 None:intergenic 50.0%
! GAGTTTGAGTTCCGTCCAGA+TGG + chr3.1:92849988-92850007 MS.gene68136:CDS 50.0%
!! CAAAGCAGTGCTGATCCTGA+AGG + chr3.1:92850357-92850376 MS.gene68136:CDS 50.0%
CGACACTCACGAAGAACAGC+AGG - chr3.1:92850084-92850103 None:intergenic 55.0%
GGGGGGGTGAAATTAGGGTT+AGG - chr3.1:92850166-92850185 None:intergenic 55.0%
TCCTGACGACCAACACGGTC+TGG - chr3.1:92850267-92850286 None:intergenic 60.0%
TGGCCTGAACCAGACCGTGT+TGG + chr3.1:92850255-92850274 MS.gene68136:CDS 60.0%
! ACCAGACCGTGTTGGTCGTC+AGG + chr3.1:92850263-92850282 MS.gene68136:CDS 60.0%
! CGACCAACACGGTCTGGTTC+AGG - chr3.1:92850261-92850280 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 92849907 92850691 92849907 ID=MS.gene68136
chr3.1 mRNA 92849907 92850691 92849907 ID=MS.gene68136.t1;Parent=MS.gene68136
chr3.1 exon 92849907 92850125 92849907 ID=MS.gene68136.t1.exon1;Parent=MS.gene68136.t1
chr3.1 CDS 92849907 92850125 92849907 ID=cds.MS.gene68136.t1;Parent=MS.gene68136.t1
chr3.1 exon 92850231 92850407 92850231 ID=MS.gene68136.t1.exon2;Parent=MS.gene68136.t1
chr3.1 CDS 92850231 92850407 92850231 ID=cds.MS.gene68136.t1;Parent=MS.gene68136.t1
chr3.1 exon 92850668 92850691 92850668 ID=MS.gene68136.t1.exon3;Parent=MS.gene68136.t1
chr3.1 CDS 92850668 92850691 92850668 ID=cds.MS.gene68136.t1;Parent=MS.gene68136.t1
Gene Sequence

>MS.gene68136

ATGGGAAGCGAAGAAGAGAATGCAGAGTTTTACTTGAGATACTACGTTGGTCATAAGGGTAAATTCGGACATGAATTTTTGGAGTTTGAGTTCCGTCCAGATGGTAAGCTTCGTTATGCTAACAATTCCAATTACAAAAACGATACCATCATTCGTAAGGAGGTTTATCTTACTCCTGCTGTTCTTCGTGAGTGTCGTCGTATTATTTCTGACAGCGAGGTATTCTATTCTTTTCTTTTCTTTTCTTTTTACTAACCCTAACCCTAATTTCACCCCCCCTTTTCCTTTTTTATTATTGCTTATAACTCTATTCAACAACAACAGATTATGAAGGAGGATGATAACAACTGGCCTGAACCAGACCGTGTTGGTCGTCAGGAACTTGAGATTGTTATGGGGAATGAGCATATCTCCTTTACTACTTCCAAGATTGGTTCTCTTGTTGATGTTCAAAGCAGTGCTGATCCTGAAGGCCTTCGCATCTTTTACTATCTTGTTCAGGTCTGTCAGATTCTTCCTTCAAATTTAAGCATACCAAAACTGCTTAAGCACAGATAATTGCCTTCATGAACTTAACTCAAATTAAACTGACCTGGCAACTTACATATATCATTACCATCACCATGCCTAAATTCACAAATATACTTTAGACAATGGTTTCATATATTGATACTTTAGCTGGGATTTCAATATAGCTGATGTAATGTTTTCAAAGTTTTAACCCATTCCTTTGCTGTTATTTTTTTACTGTATTTCTGCAGAGTGGTTTATATATTCCCCCATGA

Protein sequence

>MS.gene68136.t1

MGSEEENAEFYLRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDTIIRKEVYLTPAVLRECRRIISDSEIMKEDDNNWPEPDRVGRQELEIVMGNEHISFTTSKIGSLVDVQSSADPEGLRIFYYLVQSGLYIPP