AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene060429


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060429.t1 MTR_4g121877 98.333 60 1 0 1 60 1 60 7.50e-38 119
MS.gene060429.t1 MTR_4g121870 95.000 60 3 0 1 60 137 196 1.29e-36 120
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060429.t1 AT3G06680 85.000 60 9 0 1 60 23 82 2.96e-31 103
MS.gene060429.t1 AT3G06700 85.000 60 9 0 1 60 1 60 4.78e-31 102
MS.gene060429.t1 AT3G06700 85.000 60 9 0 1 60 1 60 4.78e-31 102
MS.gene060429.t1 AT3G06700 85.000 60 9 0 1 60 1 60 4.78e-31 102
MS.gene060429.t1 AT3G06680 85.000 60 9 0 1 60 1 60 6.50e-31 102
MS.gene060429.t1 AT3G06680 85.000 60 9 0 1 60 1 60 6.50e-31 102

Find 13 sgRNAs with CRISPR-Local

Find 16 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGTGTGACGATGCCTCTT+TGG 0.332537 7.1:-66484033 None:intergenic
CTCTGGTTCCTCAAGAACTT+TGG 0.404366 7.1:-66484168 None:intergenic
TCTTGTGAGCTTTGTAAGAC+TGG 0.419661 7.1:-66483996 None:intergenic
TATGCTTCCTTGCATACCTC+TGG 0.420261 7.1:-66484185 None:intergenic
ATCGTCACACTTCAACCAAA+GGG 0.488627 7.1:+66484043 MS.gene060429:CDS
ATGATGAATACATACCCCTT+TGG 0.493133 7.1:-66484058 None:intergenic
TCTTACAAAGCTCACAAGAA+TGG 0.532217 7.1:+66484000 MS.gene060429:CDS
CATCGTCACACTTCAACCAA+AGG 0.595920 7.1:+66484042 MS.gene060429:CDS
AGATGGATCCAAAGTTCTTG+AGG 0.596761 7.1:+66484160 MS.gene060429:intron
TGAGGAACCAGAGGTATGCA+AGG 0.624057 7.1:+66484178 MS.gene060429:CDS
CAAAGTTCTTGAGGAACCAG+AGG 0.651910 7.1:+66484169 MS.gene060429:CDS
TTTGTAAGACTGGTTGTGAG+CGG 0.659865 7.1:-66483986 None:intergenic
TCGTCACACTTCAACCAAAG+GGG 0.708509 7.1:+66484044 MS.gene060429:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTGTGATTGATTACTGTAGA+TGG + chr7.1:66484143-66484162 MS.gene060429:intron 30.0%
! AGGAAGCATAACAAGAAAAA+TGG + chr7.1:66484198-66484217 MS.gene060429:CDS 30.0%
ATGATGAATACATACCCCTT+TGG - chr7.1:66484061-66484080 None:intergenic 35.0%
TCTTACAAAGCTCACAAGAA+TGG + chr7.1:66484000-66484019 MS.gene060429:CDS 35.0%
AGATGGATCCAAAGTTCTTG+AGG + chr7.1:66484160-66484179 MS.gene060429:intron 40.0%
ATCGTCACACTTCAACCAAA+GGG + chr7.1:66484043-66484062 MS.gene060429:CDS 40.0%
ATGGCATCAAAAAGCCAAAG+AGG + chr7.1:66484019-66484038 MS.gene060429:CDS 40.0%
! TCTTGTGAGCTTTGTAAGAC+TGG - chr7.1:66483999-66484018 None:intergenic 40.0%
! TTTGTAAGACTGGTTGTGAG+CGG - chr7.1:66483989-66484008 None:intergenic 40.0%
CAAAGTTCTTGAGGAACCAG+AGG + chr7.1:66484169-66484188 MS.gene060429:CDS 45.0%
CATCGTCACACTTCAACCAA+AGG + chr7.1:66484042-66484061 MS.gene060429:CDS 45.0%
TATGCTTCCTTGCATACCTC+TGG - chr7.1:66484188-66484207 None:intergenic 45.0%
TCGTCACACTTCAACCAAAG+GGG + chr7.1:66484044-66484063 MS.gene060429:CDS 45.0%
! CTCTGGTTCCTCAAGAACTT+TGG - chr7.1:66484171-66484190 None:intergenic 45.0%
GAAGTGTGACGATGCCTCTT+TGG - chr7.1:66484036-66484055 None:intergenic 50.0%
! TGAGGAACCAGAGGTATGCA+AGG + chr7.1:66484178-66484197 MS.gene060429:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 66483964 66484242 66483964 ID=MS.gene060429
chr7.1 mRNA 66483964 66484242 66483964 ID=MS.gene060429.t1;Parent=MS.gene060429
chr7.1 exon 66483964 66484065 66483964 ID=MS.gene060429.t1.exon1;Parent=MS.gene060429.t1
chr7.1 CDS 66483964 66484065 66483964 ID=cds.MS.gene060429.t1;Parent=MS.gene060429.t1
chr7.1 exon 66484162 66484242 66484162 ID=MS.gene060429.t1.exon2;Parent=MS.gene060429.t1
chr7.1 CDS 66484162 66484242 66484162 ID=cds.MS.gene060429.t1;Parent=MS.gene060429.t1
Gene Sequence

>MS.gene060429

ATGGCGAAATCGAAGAATCACACCGCTCACAACCAGTCTTACAAAGCTCACAAGAATGGCATCAAAAAGCCAAAGAGGCATCGTCACACTTCAACCAAAGGGGTATGTATTCATCATTCTCATCTGATTTTAAACGATTGATCTATTCTGTAATGAGATTTTAATTAATTGTTTATTTATTGTGATTGATTACTGTAGATGGATCCAAAGTTCTTGAGGAACCAGAGGTATGCAAGGAAGCATAACAAGAAAAATGGTGAAATTGCAGAAGAAGAGTAA

Protein sequence

>MS.gene060429.t1

MAKSKNHTAHNQSYKAHKNGIKKPKRHRHTSTKGMDPKFLRNQRYARKHNKKNGEIAEEE