AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene060586


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060586.t1 MTR_2g076300 84.507 71 11 0 1 71 1 71 1.52e-38 122
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060586.t1 AT1G10865 74.576 59 15 0 1 59 1 59 3.52e-26 90.9
MS.gene060586.t1 AT1G10865 72.131 61 17 0 1 61 1 61 4.71e-26 90.9

Find 13 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTGAGTGTGTTGGTCTT+AGG 0.172998 2.2:-17595310 MS.gene060586:CDS
AGCTGAGTGTGTTGGTCTTA+GGG 0.357346 2.2:-17595309 MS.gene060586:CDS
GGCTAATCCTTTGCAAGACT+TGG 0.367609 2.2:+17595515 None:intergenic
ACCTATTTCAATTGCAAAAG+AGG 0.400990 2.2:-17595284 MS.gene060586:CDS
CAGTGAATCTGATTGTGTTA+AGG 0.440858 2.2:-17595472 MS.gene060586:intron
TCAATTTCAGCTGAGTGTGT+TGG 0.497821 2.2:-17595317 MS.gene060586:CDS
ACACACTCAGCTGAAATTGA+AGG 0.502802 2.2:+17595320 None:intergenic
TTTCAATTGCAAAAGAGGAC+AGG 0.525074 2.2:-17595279 MS.gene060586:CDS
AGATCATACAAGGAGTGTGC+TGG 0.532397 2.2:-17595353 MS.gene060586:CDS
GAGACACTTAACTAATTCCA+TGG 0.532404 2.2:+17595494 None:intergenic
GTCTTGCAAAGGATTAGCCA+TGG 0.600408 2.2:-17595511 MS.gene060586:CDS
GGTTGATAATAGATCATACA+AGG 0.601750 2.2:-17595363 MS.gene060586:CDS
ACAATGTCCAAGTCTTGCAA+AGG 0.613550 2.2:-17595522 MS.gene060586:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATGTTTATGATTATGAAT+AGG - chr2.2:17595370-17595389 MS.gene060586:intron 15.0%
!!! GATTTTTGTGATGTTAAAAT+GGG - chr2.2:17595347-17595366 MS.gene060586:CDS 20.0%
!!! TGATTTTTGTGATGTTAAAA+TGG - chr2.2:17595346-17595365 MS.gene060586:CDS 20.0%
!!! GGCAAGTTTTTATTATTTCT+TGG - chr2.2:17595496-17595515 MS.gene060586:CDS 25.0%
ACCTATTTCAATTGCAAAAG+AGG - chr2.2:17595470-17595489 MS.gene060586:intron 30.0%
! TCCTCTTTTGCAATTGAAAT+AGG + chr2.2:17595474-17595493 None:intergenic 30.0%
!! GGTTGATAATAGATCATACA+AGG - chr2.2:17595391-17595410 MS.gene060586:intron 30.0%
CAGTGAATCTGATTGTGTTA+AGG - chr2.2:17595282-17595301 MS.gene060586:CDS 35.0%
GAGACACTTAACTAATTCCA+TGG + chr2.2:17595263-17595282 None:intergenic 35.0%
TTTCAATTGCAAAAGAGGAC+AGG - chr2.2:17595475-17595494 MS.gene060586:CDS 35.0%
ACACACTCAGCTGAAATTGA+AGG + chr2.2:17595437-17595456 None:intergenic 40.0%
TCAATTTCAGCTGAGTGTGT+TGG - chr2.2:17595437-17595456 MS.gene060586:intron 40.0%
GGCTAATCCTTTGCAAGACT+TGG + chr2.2:17595242-17595261 None:intergenic 45.0%
! AGATCATACAAGGAGTGTGC+TGG - chr2.2:17595401-17595420 MS.gene060586:intron 45.0%
!! AGCTGAGTGTGTTGGTCTTA+GGG - chr2.2:17595445-17595464 MS.gene060586:intron 45.0%
!! GTCTTGCAAAGGATTAGCCA+TGG - chr2.2:17595243-17595262 MS.gene060586:CDS 45.0%
!! CAGCTGAGTGTGTTGGTCTT+AGG - chr2.2:17595444-17595463 MS.gene060586:intron 50.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 17595235 17595541 17595235 ID=MS.gene060586
chr2.2 mRNA 17595235 17595541 17595235 ID=MS.gene060586.t1;Parent=MS.gene060586
chr2.2 exon 17595473 17595541 17595473 ID=MS.gene060586.t1.exon1;Parent=MS.gene060586.t1
chr2.2 CDS 17595473 17595541 17595473 ID=cds.MS.gene060586.t1;Parent=MS.gene060586.t1
chr2.2 exon 17595235 17595384 17595235 ID=MS.gene060586.t1.exon2;Parent=MS.gene060586.t1
chr2.2 CDS 17595235 17595384 17595235 ID=cds.MS.gene060586.t1;Parent=MS.gene060586.t1
Gene Sequence

>MS.gene060586

ATGTCCAAGTCTTGCAAAGGATTAGCCATGGAATTAGTTAAGTGTCTCAGTGAATCTGATTGTGTTAAGGTTCGTTTTTTTATTAGTGTGAATTTATGTAATTTTTAATTTTGATTTTTGTGATGTTAAAATGGGTTATGTTTATGATTATGAATAGGTTGATAATAGATCATACAAGGAGTGTGCTGGAGAGAAGACTCCTTCAATTTCAGCTGAGTGTGTTGGTCTTAGGGAAACCTATTTCAATTGCAAAAGAGGACAGGCAAGTTTTTATTATTTCTTGGATTTATCATGTTACATTTGTTAG

Protein sequence

>MS.gene060586.t1

MSKSCKGLAMELVKCLSESDCVKVDNRSYKECAGEKTPSISAECVGLRETYFNCKRGQASFYYFLDLSCYIC