AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024372.01


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 24 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCACTGTTTGTTTCACCTTC+AGG 0.329516 5:-3969928 None:intergenic
AAAGAATAAGAGAATGGAAT+TGG 0.329681 5:+3969990 MsG0580024372.01.T01:CDS
CAATCTCAGCTACTCCTTCA+AGG 0.409725 5:-3969865 None:intergenic
CTTGAAGGAGTAGCTGAGAT+TGG 0.425028 5:+3969866 MsG0580024372.01.T01:CDS
TTGAAGGAGTAGCTGAGATT+GGG 0.432650 5:+3969867 MsG0580024372.01.T01:CDS
AAGAATAAGAGAATGGAATT+GGG 0.439995 5:+3969991 MsG0580024372.01.T01:CDS
GAATTGGGTGAGAAGATTTG+AGG 0.443328 5:+3970006 MsG0580024372.01.T01:CDS
AGAGGAAAAGAATAAGAGAA+TGG 0.478928 5:+3969984 MsG0580024372.01.T01:CDS
GATGGTGATGATTGAGATGA+AGG 0.483330 5:+3969949 MsG0580024372.01.T01:CDS
AAACCATGGCCAACCCGAAA+AGG 0.483370 5:+3969837 MsG0580024372.01.T01:CDS
ATCGATTTCAACTGAGGCTG+TGG 0.487178 5:+3969895 MsG0580024372.01.T01:CDS
CCGAAAAGGAAGAACCTTGA+AGG 0.499233 5:+3969851 MsG0580024372.01.T01:CDS
TTTGAGGGATGTGTTGTGAA+TGG 0.502405 5:+3970022 MsG0580024372.01.T01:CDS
AATTGGGTGAGAAGATTTGA+GGG 0.505339 5:+3970007 MsG0580024372.01.T01:CDS
TTGAGGGATGTGTTGTGAAT+GGG 0.505538 5:+3970023 MsG0580024372.01.T01:CDS
TGTGGTGTTGCAGCTCCTGA+AGG 0.532744 5:+3969913 MsG0580024372.01.T01:CDS
TGAAGGGTATGGTGTTTGAG+AGG 0.536988 5:+3969966 MsG0580024372.01.T01:CDS
GGATTTATCGATTTCAACTG+AGG 0.577148 5:+3969889 MsG0580024372.01.T01:CDS
TGAAGGAGTAGCTGAGATTG+GGG 0.614139 5:+3969868 MsG0580024372.01.T01:CDS
ATCGATGAAGGTCAAAACCA+TGG 0.631860 5:+3969823 None:intergenic
GATGATTGAGATGAAGGGTA+TGG 0.635859 5:+3969955 MsG0580024372.01.T01:CDS
ATGGTGATGATTGAGATGAA+GGG 0.652792 5:+3969950 MsG0580024372.01.T01:CDS
GAAGGTGAAACAAACAGTGA+TGG 0.686130 5:+3969931 MsG0580024372.01.T01:CDS
GGGATGTGTTGTGAATGGGA+AGG 0.753154 5:+3970027 MsG0580024372.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAGAATAAGAGAATGGAAT+TGG + Chr5:3969990-3970009 MsG0580024372.01.T01:CDS 25.0%
! AAGAATAAGAGAATGGAATT+GGG + Chr5:3969991-3970010 MsG0580024372.01.T01:CDS 25.0%
AGAGGAAAAGAATAAGAGAA+TGG + Chr5:3969984-3970003 MsG0580024372.01.T01:CDS 30.0%
AATTGGGTGAGAAGATTTGA+GGG + Chr5:3970007-3970026 MsG0580024372.01.T01:CDS 35.0%
! ATGGTGATGATTGAGATGAA+GGG + Chr5:3969950-3969969 MsG0580024372.01.T01:CDS 35.0%
!! GGATTTATCGATTTCAACTG+AGG + Chr5:3969889-3969908 MsG0580024372.01.T01:CDS 35.0%
GAAGGTGAAACAAACAGTGA+TGG + Chr5:3969931-3969950 MsG0580024372.01.T01:CDS 40.0%
GAATTGGGTGAGAAGATTTG+AGG + Chr5:3970006-3970025 MsG0580024372.01.T01:CDS 40.0%
GATGATTGAGATGAAGGGTA+TGG + Chr5:3969955-3969974 MsG0580024372.01.T01:CDS 40.0%
TCACTGTTTGTTTCACCTTC+AGG - Chr5:3969931-3969950 None:intergenic 40.0%
TTGAAGGAGTAGCTGAGATT+GGG + Chr5:3969867-3969886 MsG0580024372.01.T01:CDS 40.0%
TTGAGGGATGTGTTGTGAAT+GGG + Chr5:3970023-3970042 MsG0580024372.01.T01:CDS 40.0%
TTTGAGGGATGTGTTGTGAA+TGG + Chr5:3970022-3970041 MsG0580024372.01.T01:CDS 40.0%
! CCTTCAAGGTTCTTCCTTTT+CGG - Chr5:3969854-3969873 None:intergenic 40.0%
! CTTCAAGGTTCTTCCTTTTC+GGG - Chr5:3969853-3969872 None:intergenic 40.0%
! GATGGTGATGATTGAGATGA+AGG + Chr5:3969949-3969968 MsG0580024372.01.T01:CDS 40.0%
CAATCTCAGCTACTCCTTCA+AGG - Chr5:3969868-3969887 None:intergenic 45.0%
CCGAAAAGGAAGAACCTTGA+AGG + Chr5:3969851-3969870 MsG0580024372.01.T01:CDS 45.0%
CTTGAAGGAGTAGCTGAGAT+TGG + Chr5:3969866-3969885 MsG0580024372.01.T01:CDS 45.0%
TGAAGGAGTAGCTGAGATTG+GGG + Chr5:3969868-3969887 MsG0580024372.01.T01:CDS 45.0%
! ATCGATTTCAACTGAGGCTG+TGG + Chr5:3969895-3969914 MsG0580024372.01.T01:CDS 45.0%
! TGAAGGGTATGGTGTTTGAG+AGG + Chr5:3969966-3969985 MsG0580024372.01.T01:CDS 45.0%
!!! AAGGTTCTTCCTTTTCGGGT+TGG - Chr5:3969849-3969868 None:intergenic 45.0%
AAACCATGGCCAACCCGAAA+AGG + Chr5:3969837-3969856 MsG0580024372.01.T01:CDS 50.0%
GGGATGTGTTGTGAATGGGA+AGG + Chr5:3970027-3970046 MsG0580024372.01.T01:CDS 50.0%
!! TGTGGTGTTGCAGCTCCTGA+AGG + Chr5:3969913-3969932 MsG0580024372.01.T01:CDS 55.0%
!!! CTTCCTTTTCGGGTTGGCCA+TGG - Chr5:3969843-3969862 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 3969827 3970054 3969827 ID=MsG0580024372.01;Name=MsG0580024372.01
Chr5 mRNA 3969827 3970054 3969827 ID=MsG0580024372.01.T01;Parent=MsG0580024372.01;Name=MsG0580024372.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|75
Chr5 exon 3969827 3970054 3969827 ID=MsG0580024372.01.T01:exon:2133;Parent=MsG0580024372.01.T01
Chr5 CDS 3969827 3970054 3969827 ID=MsG0580024372.01.T01:cds;Parent=MsG0580024372.01.T01
Gene Sequence

>MsG0580024372.01.T01

ATGAAGGTCAAAACCATGGCCAACCCGAAAAGGAAGAACCTTGAAGGAGTAGCTGAGATTGGGGATTTATCGATTTCAACTGAGGCTGTGGTGTTGCAGCTCCTGAAGGTGAAACAAACAGTGATGGTGATGATTGAGATGAAGGGTATGGTGTTTGAGAGGAAAAGAATAAGAGAATGGAATTGGGTGAGAAGATTTGAGGGATGTGTTGTGAATGGGAAGGAGTAA

Protein sequence

>MsG0580024372.01.T01

MKVKTMANPKRKNLEGVAEIGDLSISTEAVVLQLLKVKQTVMVMIEMKGMVFERKRIREWNWVRRFEGCVVNGKE*