AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017728.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017728.01.T01 MTR_3g111190 100.000 78 0 0 1 78 358 435 1.40e-50 164
MsG0380017728.01.T01 MTR_3g111190 100.000 78 0 0 1 78 454 531 4.67e-50 164
MsG0380017728.01.T01 MTR_5g067410 89.333 75 8 0 1 75 465 539 1.07e-43 147
MsG0380017728.01.T01 MTR_4g092820 60.256 78 31 0 1 78 452 529 6.26e-28 104
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017728.01.T01 AT1G58290 76.923 78 16 1 1 78 468 543 4.76e-36 127
MsG0380017728.01.T01 AT1G09940 70.667 75 20 1 1 75 457 529 1.96e-31 114
MsG0380017728.01.T01 AT2G31250 50.704 71 33 1 2 72 452 520 6.40e-16 70.9

Find 21 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTGGATCCATCTCACTTC+TGG 0.271267 3:-100059134 None:intergenic
AGAGACTGAAATATCTGTTT+TGG 0.298449 3:+100059080 MsG0380017728.01.T01:CDS
ATGGTCCAATGCAACATTTA+AGG 0.316246 3:+100058983 MsG0380017728.01.T01:CDS
TGTTCTCAAGGGTCTCAGTT+AGG 0.318272 3:-100059029 None:intergenic
GTTCTCAAGGGTCTCAGTTA+GGG 0.416753 3:-100059028 None:intergenic
CAAGGGTCTCAGTTAGGGTT+CGG 0.456916 3:-100059023 None:intergenic
AGCTGTGGATGATCTTAGTC+GGG 0.458876 3:+100058939 MsG0380017728.01.T01:CDS
TTAGTCGGGGTATTGTGAAT+AGG 0.483898 3:+100058953 MsG0380017728.01.T01:CDS
TCAAAGCATGCATGTTCTCA+AGG 0.503890 3:-100059041 None:intergenic
ATTGTGAATAGGATGCTTCA+TGG 0.507796 3:+100058964 MsG0380017728.01.T01:CDS
TCACACCTTAAATGTTGCAT+TGG 0.511482 3:-100058988 None:intergenic
ATGCAACATTTAAGGTGTGA+TGG 0.525826 3:+100058991 MsG0380017728.01.T01:CDS
AAGCTGTGGATGATCTTAGT+CGG 0.534663 3:+100058938 MsG0380017728.01.T01:CDS
GGAGCAGAAAGTTCGAGCTA+AGG 0.538367 3:+100059101 MsG0380017728.01.T01:CDS
TGCAACATTTAAGGTGTGAT+GGG 0.541340 3:+100058992 MsG0380017728.01.T01:CDS
AAACAGATATTTCAGTCTCT+AGG 0.555709 3:-100059077 None:intergenic
CAAAGCATGCATGTTCTCAA+GGG 0.572276 3:-100059040 None:intergenic
AAAGAAGACGCGGAAAGCTG+TGG 0.575501 3:+100058924 MsG0380017728.01.T01:CDS
GCAGAAAGTTCGAGCTAAGG+TGG 0.577492 3:+100059104 MsG0380017728.01.T01:CDS
ATGATATCTCAAAGAAGACG+CGG 0.701193 3:+100058914 MsG0380017728.01.T01:CDS
GCTGTGGATGATCTTAGTCG+GGG 0.710260 3:+100058940 MsG0380017728.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAACAGATATTTCAGTCTCT+AGG - Chr3:100059080-100059099 None:intergenic 30.0%
! AGAGACTGAAATATCTGTTT+TGG + Chr3:100059080-100059099 MsG0380017728.01.T01:CDS 30.0%
ATGATATCTCAAAGAAGACG+CGG + Chr3:100058914-100058933 MsG0380017728.01.T01:CDS 35.0%
ATGGTCCAATGCAACATTTA+AGG + Chr3:100058983-100059002 MsG0380017728.01.T01:CDS 35.0%
ATTGTGAATAGGATGCTTCA+TGG + Chr3:100058964-100058983 MsG0380017728.01.T01:CDS 35.0%
TCACACCTTAAATGTTGCAT+TGG - Chr3:100058991-100059010 None:intergenic 35.0%
! ATGCAACATTTAAGGTGTGA+TGG + Chr3:100058991-100059010 MsG0380017728.01.T01:CDS 35.0%
! TGCAACATTTAAGGTGTGAT+GGG + Chr3:100058992-100059011 MsG0380017728.01.T01:CDS 35.0%
AAGCTGTGGATGATCTTAGT+CGG + Chr3:100058938-100058957 MsG0380017728.01.T01:CDS 40.0%
CAAAGCATGCATGTTCTCAA+GGG - Chr3:100059043-100059062 None:intergenic 40.0%
TCAAAGCATGCATGTTCTCA+AGG - Chr3:100059044-100059063 None:intergenic 40.0%
!! TTAGTCGGGGTATTGTGAAT+AGG + Chr3:100058953-100058972 MsG0380017728.01.T01:CDS 40.0%
AGCTGTGGATGATCTTAGTC+GGG + Chr3:100058939-100058958 MsG0380017728.01.T01:CDS 45.0%
GTTCTCAAGGGTCTCAGTTA+GGG - Chr3:100059031-100059050 None:intergenic 45.0%
TGTTCTCAAGGGTCTCAGTT+AGG - Chr3:100059032-100059051 None:intergenic 45.0%
AAAGAAGACGCGGAAAGCTG+TGG + Chr3:100058924-100058943 MsG0380017728.01.T01:CDS 50.0%
CAAGGGTCTCAGTTAGGGTT+CGG - Chr3:100059026-100059045 None:intergenic 50.0%
GCAGAAAGTTCGAGCTAAGG+TGG + Chr3:100059104-100059123 MsG0380017728.01.T01:CDS 50.0%
GCTGTGGATGATCTTAGTCG+GGG + Chr3:100058940-100058959 MsG0380017728.01.T01:CDS 50.0%
GGAGCAGAAAGTTCGAGCTA+AGG + Chr3:100059101-100059120 MsG0380017728.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 100058907 100059143 100058907 ID=MsG0380017728.01;Name=MsG0380017728.01
Chr3 mRNA 100058907 100059143 100058907 ID=MsG0380017728.01.T01;Parent=MsG0380017728.01;Name=MsG0380017728.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|78
Chr3 exon 100058907 100059143 100058907 ID=MsG0380017728.01.T01:exon:2725;Parent=MsG0380017728.01.T01
Chr3 CDS 100058907 100059143 100058907 ID=MsG0380017728.01.T01:cds;Parent=MsG0380017728.01.T01
Gene Sequence

>MsG0380017728.01.T01

ATGGGTGATGATATCTCAAAGAAGACGCGGAAAGCTGTGGATGATCTTAGTCGGGGTATTGTGAATAGGATGCTTCATGGTCCAATGCAACATTTAAGGTGTGATGGGAGTGACGACCGAACCCTAACTGAGACCCTTGAGAACATGCATGCTTTGAATAGAATGTTCAGCCTAGAGACTGAAATATCTGTTTTGGAGCAGAAAGTTCGAGCTAAGGTGGAACAAAACCAGAAGTGA

Protein sequence

>MsG0380017728.01.T01

MGDDISKKTRKAVDDLSRGIVNRMLHGPMQHLRCDGSDDRTLTETLENMHALNRMFSLETEISVLEQKVRAKVEQNQK*