AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017405.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017405.01.T01 MTR_3g106820 99.074 108 1 0 1 108 102 209 8.73e-70 207
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017405.01.T01 AT4G32260 77.143 105 24 0 1 105 114 218 5.42e-38 127

Find 18 sgRNAs with CRISPR-Local

Find 16 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAGAAGCTCTTGCAAATT+TGG 0.138611 3:-95898186 MsG0380017405.01.T01:CDS
TTCCAACTCCTTCACTTCTT+CGG 0.354892 3:+95898340 None:intergenic
GAACCTTGTTAACAATATCT+TGG 0.384952 3:+95898108 None:intergenic
TTGAGATATCAACGAGAAAC+AGG 0.396683 3:+95898083 None:intergenic
TGCAAATTTGGAAAAGCAAA+AGG 0.407369 3:-95898174 MsG0380017405.01.T01:CDS
CGCAGCTCTCAAAACTGCAT+TGG 0.476740 3:+95898310 None:intergenic
CTTCACTTCTTCGGATGTGT+TGG 0.483273 3:+95898349 None:intergenic
TAGCCAAGATATTGTTAACA+AGG 0.566254 3:-95898111 MsG0380017405.01.T01:CDS
ATCCGAAGAAGTGAAGGAGT+TGG 0.580997 3:-95898342 MsG0380017405.01.T01:CDS
TGCGCGTGCTGAAATTGCGG+TGG 0.591536 3:-95898291 MsG0380017405.01.T01:CDS
AAGCGAAGATTGCGGAAGGT+AGG 0.592242 3:-95898229 MsG0380017405.01.T01:CDS
CAACACATCCGAAGAAGTGA+AGG 0.596455 3:-95898348 MsG0380017405.01.T01:CDS
AGCTGCGCGTGCTGAAATTG+CGG 0.598150 3:-95898294 MsG0380017405.01.T01:CDS
AATCGTGACGCGGAAATCAG+AGG 0.616507 3:-95898389 MsG0380017405.01.T01:CDS
GATTGCGGAAGGTAGGAAGA+AGG 0.621119 3:-95898222 MsG0380017405.01.T01:CDS
GTTGAAGCGAAGATTGCGGA+AGG 0.664257 3:-95898233 MsG0380017405.01.T01:CDS
TGAAGTTGAAGCGAAGATTG+CGG 0.692066 3:-95898237 MsG0380017405.01.T01:CDS
CTTCATGGACAATCGTGACG+CGG 0.701097 3:-95898399 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GAACCTTGTTAACAATATCT+TGG + Chr3:95898381-95898400 None:intergenic 30.0%
TAGCCAAGATATTGTTAACA+AGG - Chr3:95898375-95898394 MsG0380017405.01.T01:CDS 30.0%
TGCAAATTTGGAAAAGCAAA+AGG - Chr3:95898312-95898331 MsG0380017405.01.T01:CDS 30.0%
GCAAGAAGCTCTTGCAAATT+TGG - Chr3:95898300-95898319 MsG0380017405.01.T01:CDS 40.0%
TGAAGTTGAAGCGAAGATTG+CGG - Chr3:95898249-95898268 MsG0380017405.01.T01:CDS 40.0%
TTCCAACTCCTTCACTTCTT+CGG + Chr3:95898149-95898168 None:intergenic 40.0%
ATCCGAAGAAGTGAAGGAGT+TGG - Chr3:95898144-95898163 MsG0380017405.01.T01:CDS 45.0%
CAACACATCCGAAGAAGTGA+AGG - Chr3:95898138-95898157 MsG0380017405.01.T01:CDS 45.0%
CTTCACTTCTTCGGATGTGT+TGG + Chr3:95898140-95898159 None:intergenic 45.0%
AAGCGAAGATTGCGGAAGGT+AGG - Chr3:95898257-95898276 MsG0380017405.01.T01:CDS 50.0%
AATCGTGACGCGGAAATCAG+AGG - Chr3:95898097-95898116 MsG0380017405.01.T01:CDS 50.0%
CGCAGCTCTCAAAACTGCAT+TGG + Chr3:95898179-95898198 None:intergenic 50.0%
GATTGCGGAAGGTAGGAAGA+AGG - Chr3:95898264-95898283 MsG0380017405.01.T01:CDS 50.0%
GTTGAAGCGAAGATTGCGGA+AGG - Chr3:95898253-95898272 MsG0380017405.01.T01:CDS 50.0%
AGCTGCGCGTGCTGAAATTG+CGG - Chr3:95898192-95898211 MsG0380017405.01.T01:CDS 55.0%
TGCGCGTGCTGAAATTGCGG+TGG - Chr3:95898195-95898214 MsG0380017405.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 95898091 95898417 95898091 ID=MsG0380017405.01;Name=MsG0380017405.01
Chr3 mRNA 95898091 95898417 95898091 ID=MsG0380017405.01.T01;Parent=MsG0380017405.01;Name=MsG0380017405.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|108
Chr3 exon 95898091 95898417 95898091 ID=MsG0380017405.01.T01:exon:35384;Parent=MsG0380017405.01.T01
Chr3 CDS 95898091 95898417 95898091 ID=MsG0380017405.01.T01:cds;Parent=MsG0380017405.01.T01
Gene Sequence

>MsG0380017405.01.T01

ATGGACAATCGTGACGCGGAAATCAGAGGCAAACTCAACAGCGTCACCAACACATCCGAAGAAGTGAAGGAGTTGGAAGAACAAGCCAATGCAGTTTTGAGAGCTGCGCGTGCTGAAATTGCGGTGGCGCTGAATCAGATGAAGAAAGAGACTCAAGCTGAAGTTGAAGCGAAGATTGCGGAAGGTAGGAAGAAGGTTGATGCTGAATTGCAAGAAGCTCTTGCAAATTTGGAAAAGCAAAAGGAAGAAACTGTTAAAGCTCTTGATTCTCAGATTGCTGCTCTTAGCCAAGATATTGTTAACAAGGTTCTTCCTGTTTCTCGTTGA

Protein sequence

>MsG0380017405.01.T01

MDNRDAEIRGKLNSVTNTSEEVKELEEQANAVLRAARAEIAVALNQMKKETQAEVEAKIAEGRKKVDAELQEALANLEKQKEETVKALDSQIAALSQDIVNKVLPVSR*