AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0410300


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 4 sgRNAs with CRISPR-Local

Find 14 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATTAATCTCCACAATTGT+AGG 0.395604 3_2:+51965957 None:intergenic
ACACATGTGGCCTACAATTG+TGG 0.544501 3_2:-51965967 Msa0410300:CDS
TGATGATGATATTTATCTAG+AGG 0.605747 3_2:-51965781 None:intergenic
GAACAATCTTCAAACACATG+TGG 0.635638 3_2:-51965980 Msa0410300:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAAAACAACAAAACT+AGG + chr3_2:51965919-51965938 None:intergenic 15.0%
!!! AATTGTGGAGATTAATTTTA+TGG - chr3_2:51965832-51965851 Msa0410300:intron 20.0%
!!! ATTGTGGAGATTAATTTTAT+GGG - chr3_2:51965833-51965852 Msa0410300:intron 20.0%
! AAATTAATCTCCACAATTGT+AGG + chr3_2:51965830-51965849 None:intergenic 25.0%
TGTTCCAAAGAATCCAAAAA+AGG + chr3_2:51965789-51965808 None:intergenic 30.0%
! TGGAGATTAATTTTATGGGT+AGG - chr3_2:51965837-51965856 Msa0410300:intron 30.0%
! TTAATTTTATGGGTAGGTCA+TGG - chr3_2:51965843-51965862 Msa0410300:intron 30.0%
!!! TTGGCCTTTTTTGGATTCTT+TGG - chr3_2:51965782-51965801 Msa0410300:CDS 35.0%
GAACAATCTTCAAACACATG+TGG - chr3_2:51965804-51965823 Msa0410300:CDS 35.0%
AACAACAAAACTAGGACAAC+TGG + chr3_2:51965911-51965930 None:intergenic 35.0%
ACACATGTGGCCTACAATTG+TGG - chr3_2:51965817-51965836 Msa0410300:CDS 45.0%
GTCATGGATCTGTGTGTGTG+TGG - chr3_2:51965859-51965878 Msa0410300:intron 50.0%
TCTGTGTGTGTGTGGCAGAT+AGG - chr3_2:51965867-51965886 Msa0410300:intron 50.0%
GTGTGTGTGGCAGATAGGTT+AGG - chr3_2:51965872-51965891 Msa0410300:intron 50.0%
Chromosome Type Strat End Strand Name
chr3_2 gene 51965782 51966024 51965782 ID=Msa0410300;Name=Msa0410300
chr3_2 mRNA 51965782 51966024 51965782 ID=Msa0410300-mRNA-1;Parent=Msa0410300;Name=Msa0410300-mRNA-1;_AED=0.82;_eAED=1.00;_QI=0|0|0|0.5|0|0|2|0|47
chr3_2 exon 51965952 51966024 51965952 ID=Msa0410300-mRNA-1:exon:10242;Parent=Msa0410300-mRNA-1
chr3_2 exon 51965782 51965849 51965782 ID=Msa0410300-mRNA-1:exon:10241;Parent=Msa0410300-mRNA-1
chr3_2 CDS 51965952 51966024 51965952 ID=Msa0410300-mRNA-1:cds;Parent=Msa0410300-mRNA-1
chr3_2 CDS 51965782 51965849 51965782 ID=Msa0410300-mRNA-1:cds;Parent=Msa0410300-mRNA-1
Gene Sequence

>Msa0410300

TTGGCCTTTTTTGGATTCTTTGGAACAATCTTCAAACACATGTGGCCTACAATTGTGGAGATTAATTTTATGGTGTCAAAGACAATTTCAAATTTCTTTTGTTCTAATGTTATTGATGATGATGATGATATTTATCTAGAG

Protein sequence

>Msa0410300

LAFFGFFGTIFKHMWPTIVEINFMVSKTISNFFCSNVIDDDDDIYLE