AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004275.01


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 9 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGTGAGGATGACGGTCTTC+TGG 0.295263 1:-75917900 MsG0180004275.01.T01:CDS
GAGCAGGCTTCTAGTGCTTC+TGG 0.304491 1:-75917693 MsG0180004275.01.T01:CDS
TTGTATTGGTTGCAGAGAGC+AGG 0.434704 1:-75917709 MsG0180004275.01.T01:intron
GCTTCATCACTAGAACTTCC+AGG 0.434881 1:+75917851 None:intergenic
TGCTTCTGGAAAGCTGTGTC+TGG 0.441417 1:-75917679 MsG0180004275.01.T01:CDS
TGCTACTGTTACAGAGAGAC+TGG 0.510752 1:-75917923 MsG0180004275.01.T01:CDS
GAGACTGGCAGTGAGGATGA+CGG 0.624219 1:-75917908 MsG0180004275.01.T01:CDS
AATTGACAGACAAAAGTACC+AGG 0.657399 1:-75917814 MsG0180004275.01.T01:intron
TTACAGAGAGACTGGCAGTG+AGG 0.722783 1:-75917915 MsG0180004275.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTTATCTCAATAAGTTTTT+TGG - Chr1:75917806-75917825 MsG0180004275.01.T01:intron 20.0%
!!! TAGTGGATAATTTTTTGTAT+TGG - Chr1:75917847-75917866 MsG0180004275.01.T01:CDS 20.0%
! ATTATATCGATGAAAAGTAG+TGG - Chr1:75917830-75917849 MsG0180004275.01.T01:CDS 25.0%
!!! AGCAAAGATGTTTTAGTACT+TGG - Chr1:75917781-75917800 MsG0180004275.01.T01:intron 30.0%
!!! GATGATGATTTTTTTCTTCC+TGG - Chr1:75917701-75917720 MsG0180004275.01.T01:intron 30.0%
!!! GCAAAGATGTTTTAGTACTT+GGG - Chr1:75917782-75917801 MsG0180004275.01.T01:intron 30.0%
!! AATTGACAGACAAAAGTACC+AGG - Chr1:75917756-75917775 MsG0180004275.01.T01:intron 35.0%
CTAAAACATCTTTGCTCACC+TGG + Chr1:75917777-75917796 None:intergenic 40.0%
TGTCCAGCGATGAAAAAATC+AGG - Chr1:75917916-75917935 MsG0180004275.01.T01:CDS 40.0%
!!! GAACCTGATTTTTTCATCGC+TGG + Chr1:75917922-75917941 None:intergenic 40.0%
GCTTCATCACTAGAACTTCC+AGG + Chr1:75917722-75917741 None:intergenic 45.0%
TGCTACTGTTACAGAGAGAC+TGG - Chr1:75917647-75917666 MsG0180004275.01.T01:CDS 45.0%
!! TTGTATTGGTTGCAGAGAGC+AGG - Chr1:75917861-75917880 MsG0180004275.01.T01:CDS 45.0%
TTACAGAGAGACTGGCAGTG+AGG - Chr1:75917655-75917674 MsG0180004275.01.T01:CDS 50.0%
! TGCTTCTGGAAAGCTGTGTC+TGG - Chr1:75917891-75917910 MsG0180004275.01.T01:CDS 50.0%
GAGACTGGCAGTGAGGATGA+CGG - Chr1:75917662-75917681 MsG0180004275.01.T01:CDS 55.0%
GAGCAGGCTTCTAGTGCTTC+TGG - Chr1:75917877-75917896 MsG0180004275.01.T01:CDS 55.0%
! CAGTGAGGATGACGGTCTTC+TGG - Chr1:75917670-75917689 MsG0180004275.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 75917644 75917948 75917644 ID=MsG0180004275.01;Name=MsG0180004275.01
Chr1 mRNA 75917644 75917948 75917644 ID=MsG0180004275.01.T01;Parent=MsG0180004275.01;Name=MsG0180004275.01.T01;_AED=0.49;_eAED=0.55;_QI=0|1|0|1|1|1|2|0|68
Chr1 exon 75917815 75917948 75917815 ID=MsG0180004275.01.T01:exon:14719;Parent=MsG0180004275.01.T01
Chr1 exon 75917644 75917716 75917644 ID=MsG0180004275.01.T01:exon:14718;Parent=MsG0180004275.01.T01
Chr1 CDS 75917815 75917948 75917815 ID=MsG0180004275.01.T01:cds;Parent=MsG0180004275.01.T01
Chr1 CDS 75917644 75917716 75917644 ID=MsG0180004275.01.T01:cds;Parent=MsG0180004275.01.T01
Gene Sequence

>MsG0180004275.01.T01

TTGTGCTACTGTTACAGAGAGACTGGCAGTGAGGATGACGGTCTTCTGGATCTCAGTGATGATGATTTTTTTCTTCCTGGAAGTTCTAGTGATGAAGCTGACGCAGATGATGAATTGACAGACAAAAGTACCAGAGAGCAGGCTTCTAGTGCTTCTGGAAAGCTGTGTCTGGCATGTCCAGCGATGAAAAAATCAGGTTCGCCGTAA

Protein sequence

>MsG0180004275.01.T01

LCYCYRETGSEDDGLLDLSDDDFFLPGSSSDEADADDELTDKSTREQASSASGKLCLACPAMKKSGSP*