AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680032554.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032554.01.T01 MTR_2g044920 78.947 38 8 0 3 40 118 155 2.09e-15 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032554.01.T01 AT1G48350 76.316 38 9 0 3 40 122 159 3.06e-15 66.2

Find 19 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAAATCCTGTCTGGAAAT+AGG 0.169851 6:+44625308 MsG0680032554.01.T01:CDS
CAAAATCCTGTCTGGAAATA+GGG 0.298158 6:+44625309 MsG0680032554.01.T01:CDS
AGCTTTAACACGGCCATGTA+TGG 0.343276 6:-44625365 None:intergenic
AATCATTGCAAAATCCTGTC+TGG 0.467654 6:+44625301 MsG0680032554.01.T01:CDS
TGTGATCCCTATTTCCAGAC+AGG 0.474164 6:-44625315 None:intergenic
GCTGATGCGGCTCGCGAACA+TGG 0.492801 6:+44625391 MsG0680032554.01.T01:CDS
TGTTAAAGCTATTGCTGATG+CGG 0.547812 6:+44625378 MsG0680032554.01.T01:CDS
GCTTTAACACGGCCATGTAT+GGG 0.551225 6:-44625364 None:intergenic
CAGAGGTGGTTACCCATACA+TGG 0.553024 6:+44625352 MsG0680032554.01.T01:CDS
TGGGTAACCACCTCTGTCAA+AGG 0.569219 6:-44625345 None:intergenic
ACAAAGGTAGCCTTTGACAG+AGG 0.569891 6:+44625335 MsG0680032554.01.T01:CDS
ATGTTTAAATTTGTAACCCG+AGG 0.580603 6:+44625449 MsG0680032554.01.T01:CDS
GCTTCAGGAAGTAGCAAAGA+GGG 0.581508 6:+44625271 None:intergenic
AAGGTAGCCTTTGACAGAGG+TGG 0.614954 6:+44625338 MsG0680032554.01.T01:CDS
CATCAGCAATAGCTTTAACA+CGG 0.627319 6:-44625375 None:intergenic
TGCTTCAGGAAGTAGCAAAG+AGG 0.655766 6:+44625270 None:intergenic
TCAGGAAGTAGCAAAGAGGG+TGG 0.657714 6:+44625274 MsG0680032554.01.T01:CDS
CAGGAAGTAGCAAAGAGGGT+GGG 0.658309 6:+44625275 MsG0680032554.01.T01:CDS
TCTGGAAATAGGGATCACAA+AGG 0.730190 6:+44625319 MsG0680032554.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAATTGTTTAAATCCT+CGG - Chr6:44625469-44625488 None:intergenic 15.0%
!! AAAAAATTGTTTAAATCCTC+GGG - Chr6:44625468-44625487 None:intergenic 20.0%
ATGTTTAAATTTGTAACCCG+AGG + Chr6:44625449-44625468 MsG0680032554.01.T01:CDS 30.0%
AATCATTGCAAAATCCTGTC+TGG + Chr6:44625301-44625320 MsG0680032554.01.T01:CDS 35.0%
CAAAATCCTGTCTGGAAATA+GGG + Chr6:44625309-44625328 MsG0680032554.01.T01:CDS 35.0%
TGTTAAAGCTATTGCTGATG+CGG + Chr6:44625378-44625397 MsG0680032554.01.T01:CDS 35.0%
!! CATCAGCAATAGCTTTAACA+CGG - Chr6:44625378-44625397 None:intergenic 35.0%
!!! AATGCTGATTTTAGAACTCG+AGG - Chr6:44625417-44625436 None:intergenic 35.0%
GCAAAATCCTGTCTGGAAAT+AGG + Chr6:44625308-44625327 MsG0680032554.01.T01:CDS 40.0%
TCTGGAAATAGGGATCACAA+AGG + Chr6:44625319-44625338 MsG0680032554.01.T01:CDS 40.0%
ACAAAGGTAGCCTTTGACAG+AGG + Chr6:44625335-44625354 MsG0680032554.01.T01:CDS 45.0%
GCTTTAACACGGCCATGTAT+GGG - Chr6:44625367-44625386 None:intergenic 45.0%
TGTGATCCCTATTTCCAGAC+AGG - Chr6:44625318-44625337 None:intergenic 45.0%
! AGCTTTAACACGGCCATGTA+TGG - Chr6:44625368-44625387 None:intergenic 45.0%
AAGGTAGCCTTTGACAGAGG+TGG + Chr6:44625338-44625357 MsG0680032554.01.T01:CDS 50.0%
CAGAGGTGGTTACCCATACA+TGG + Chr6:44625352-44625371 MsG0680032554.01.T01:CDS 50.0%
CAGGAAGTAGCAAAGAGGGT+GGG + Chr6:44625275-44625294 MsG0680032554.01.T01:CDS 50.0%
TCAGGAAGTAGCAAAGAGGG+TGG + Chr6:44625274-44625293 MsG0680032554.01.T01:CDS 50.0%
TGGGTAACCACCTCTGTCAA+AGG - Chr6:44625348-44625367 None:intergenic 50.0%
GCTGATGCGGCTCGCGAACA+TGG + Chr6:44625391-44625410 MsG0680032554.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 44625272 44625490 44625272 ID=MsG0680032554.01;Name=MsG0680032554.01
Chr6 mRNA 44625272 44625490 44625272 ID=MsG0680032554.01.T01;Parent=MsG0680032554.01;Name=MsG0680032554.01.T01;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|0|1|0|72
Chr6 exon 44625272 44625490 44625272 ID=MsG0680032554.01.T01:exon:11890;Parent=MsG0680032554.01.T01
Chr6 CDS 44625272 44625490 44625272 ID=MsG0680032554.01.T01:cds;Parent=MsG0680032554.01.T01
Chr6 mRNA 44625371 44625490 44625371 ID=MsG0680032554.01.T02;Parent=MsG0680032554.01;Name=MsG0680032554.01.T02;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|0|1|0|39
Chr6 exon 44625371 44625490 44625371 ID=MsG0680032554.01.T02:exon:11891;Parent=MsG0680032554.01.T02
Chr6 CDS 44625371 44625490 44625371 ID=MsG0680032554.01.T02:cds;Parent=MsG0680032554.01.T02
Gene Sequence

>MsG0680032554.01.T01

CTTCAGGAAGTAGCAAAGAGGGTGGGTGAAATCATTGCAAAATCCTGTCTGGAAATAGGGATCACAAAGGTAGCCTTTGACAGAGGTGGTTACCCATACATGGCCGTGTTAAAGCTATTGCTGATGCGGCTCGCGAACATGGCCTCGAGTTCTAAAATCAGCATTTCTATGTATTTCATGTTTAAATTTGTAACCCGAGGATTTAAACAATTTTTTTAA

>MsG0680032554.01.T02

ATGGCCGTGTTAAAGCTATTGCTGATGCGGCTCGCGAACATGGCCTCGAGTTCTAAAATCAGCATTTCTATGTATTTCATGTTTAAATTTGTAACCCGAGGATTTAAACAATTTTTTTAA

Protein sequence

>MsG0680032554.01.T01

LQEVAKRVGEIIAKSCLEIGITKVAFDRGGYPYMAVLKLLLMRLANMASSSKISISMYFMFKFVTRGFKQFF*

>MsG0680032554.01.T02

MAVLKLLLMRLANMASSSKISISMYFMFKFVTRGFKQFF*