AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0461590


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_3:+59935207 None:intergenic
ACACATGTGGCCTACAATTG+TGG 0.544501 3_3:-59935217 Msa0461590:CDS
TGATGATGATATTTATCTAG+AGG 0.605747 3_3:-59935031 None:intergenic
GAACAATCTTCAAACACATG+TGG 0.635638 3_3:-59935230 Msa0461590:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAAAACAACAAAACT+AGG + chr3_3:59935169-59935188 None:intergenic 15.0%
!!! AATTGTGGAGATTAATTTTA+TGG - chr3_3:59935082-59935101 Msa0461590:intron 20.0%
!!! ATTGTGGAGATTAATTTTAT+GGG - chr3_3:59935083-59935102 Msa0461590:intron 20.0%
! AAATTAATCTCCACAATTGT+AGG + chr3_3:59935080-59935099 None:intergenic 25.0%
TGTTCCAAAGAATCCAAAAA+AGG + chr3_3:59935039-59935058 None:intergenic 30.0%
! TGGAGATTAATTTTATGGGT+AGG - chr3_3:59935087-59935106 Msa0461590:intron 30.0%
! TTAATTTTATGGGTAGGTCA+TGG - chr3_3:59935093-59935112 Msa0461590:intron 30.0%
!!! TTGGCCTTTTTTGGATTCTT+TGG - chr3_3:59935032-59935051 Msa0461590:CDS 35.0%
GAACAATCTTCAAACACATG+TGG - chr3_3:59935054-59935073 Msa0461590:CDS 35.0%
AACAACAAAACTAGGACAAC+TGG + chr3_3:59935161-59935180 None:intergenic 35.0%
ACACATGTGGCCTACAATTG+TGG - chr3_3:59935067-59935086 Msa0461590:CDS 45.0%
GTCATGGATCTGTGTGTGTG+TGG - chr3_3:59935109-59935128 Msa0461590:intron 50.0%
TCTGTGTGTGTGTGGCAGAT+AGG - chr3_3:59935117-59935136 Msa0461590:intron 50.0%
GTGTGTGTGGCAGATAGGTT+AGG - chr3_3:59935122-59935141 Msa0461590:intron 50.0%
Chromosome Type Strat End Strand Name
chr3_3 gene 59935032 59935274 59935032 ID=Msa0461590;Name=Msa0461590
chr3_3 mRNA 59935032 59935274 59935032 ID=Msa0461590-mRNA-1;Parent=Msa0461590;Name=Msa0461590-mRNA-1;_AED=0.82;_eAED=1.00;_QI=0|0|0|0.5|0|0|2|0|47
chr3_3 exon 59935202 59935274 59935202 ID=Msa0461590-mRNA-1:exon:12498;Parent=Msa0461590-mRNA-1
chr3_3 exon 59935032 59935099 59935032 ID=Msa0461590-mRNA-1:exon:12497;Parent=Msa0461590-mRNA-1
chr3_3 CDS 59935202 59935274 59935202 ID=Msa0461590-mRNA-1:cds;Parent=Msa0461590-mRNA-1
chr3_3 CDS 59935032 59935099 59935032 ID=Msa0461590-mRNA-1:cds;Parent=Msa0461590-mRNA-1
Gene Sequence

>Msa0461590

TTGGCCTTTTTTGGATTCTTTGGAACAATCTTCAAACACATGTGGCCTACAATTGTGGAGATTAATTTTATGGTGTCAAAGACAATTTCAAATTTCTTTTGTTCTAATGTTATTGATGATGATGATGATATTTATCTAGAG

Protein sequence

>Msa0461590

LAFFGFFGTIFKHMWPTIVEINFMVSKTISNFFCSNVIDDDDDIYLE