AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene54744

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 28 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCACATGATGAAAGAGATTA+TGG 0.175324 6.2:+4540535 MS.gene54744:CDS
CTCGTTTATGATTACTTTGC+TGG 0.255178 6.2:-4540337 None:intergenic
GTGTGGTTCTTAAAGAAATT+AGG 0.280804 6.2:+4540429 MS.gene54744:CDS
ATTAATAATCTCATCTGATA+TGG 0.314230 6.2:-4540273 None:intergenic
CTTAAAGAAATTAGGCAAAC+TGG 0.330565 6.2:+4540437 MS.gene54744:CDS
ATTATTAATTTGCTAGAGAT+TGG 0.355589 6.2:+4540287 MS.gene54744:CDS
ATGTAAACAGCATTACAATC+AGG 0.418203 6.2:-4540728 None:intergenic
TGGTCGCGCTCGTCGTCAAA+TGG 0.435702 6.2:+4540760 MS.gene54744:CDS
ATTCAGAAGTTGAGAGATGA+TGG 0.469850 6.2:+4540647 MS.gene54744:CDS
TGGTGAAATTGAGAGTGGTA+AGG 0.475838 6.2:+4540307 MS.gene54744:CDS
AGAAGTTGAGAGATGATGGC+TGG 0.483954 6.2:+4540651 MS.gene54744:CDS
CACATGATGAAAGAGATTAT+GGG 0.489063 6.2:+4540536 MS.gene54744:CDS
TCTTTAAGAACCACACAAGT+TGG 0.507344 6.2:-4540422 None:intergenic
AACGAGCTTGTGATACTCGT+TGG 0.521393 6.2:+4540354 MS.gene54744:CDS
TGTAAACAGCATTACAATCA+GGG 0.548002 6.2:-4540727 None:intergenic
ACTCGTTGGAGCTCACATCA+TGG 0.578397 6.2:+4540368 MS.gene54744:CDS
GGTGAAATTGAGAGTGGTAA+GGG 0.585425 6.2:+4540308 MS.gene54744:CDS
GGATCAAATTATTCTACGCG+TGG 0.592637 6.2:+4540458 MS.gene54744:CDS
GAAGTTGAGAGATGATGGCT+GGG 0.611799 6.2:+4540652 MS.gene54744:CDS
GATCAAATTATTCTACGCGT+GGG 0.612087 6.2:+4540459 MS.gene54744:CDS
GAGATTGGTGAAATTGAGAG+TGG 0.620614 6.2:+4540302 MS.gene54744:CDS
CAAATGGATCACATCACAGT+GGG 0.635142 6.2:+4540776 MS.gene54744:CDS
GCTGCATAATCCAACTTGTG+TGG 0.639034 6.2:+4540412 MS.gene54744:CDS
TCAAATGGATCACATCACAG+TGG 0.660623 6.2:+4540775 MS.gene54744:CDS
GCTGTTTACATAGAGCGTGA+TGG 0.667569 6.2:+4540740 MS.gene54744:CDS
GCGTAATGATGAATTGCACA+AGG 0.674597 6.2:+4540250 MS.gene54744:CDS
ATCAAATTATTCTACGCGTG+GGG 0.679044 6.2:+4540460 MS.gene54744:CDS
GTAAACAGCATTACAATCAG+GGG 0.682556 6.2:-4540726 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAATAATCTCATCTGATA+TGG - chr6.2:4540276-4540295 None:intergenic 20.0%
!!! ATTATTAATTTGCTAGAGAT+TGG + chr6.2:4540287-4540306 MS.gene54744:CDS 20.0%
ATGTAAACAGCATTACAATC+AGG - chr6.2:4540731-4540750 None:intergenic 30.0%
CACATGATGAAAGAGATTAT+GGG + chr6.2:4540536-4540555 MS.gene54744:CDS 30.0%
CTTAAAGAAATTAGGCAAAC+TGG + chr6.2:4540437-4540456 MS.gene54744:CDS 30.0%
GTGTGGTTCTTAAAGAAATT+AGG + chr6.2:4540429-4540448 MS.gene54744:CDS 30.0%
TGTAAACAGCATTACAATCA+GGG - chr6.2:4540730-4540749 None:intergenic 30.0%
ATCAAATTATTCTACGCGTG+GGG + chr6.2:4540460-4540479 MS.gene54744:CDS 35.0%
ATTCAGAAGTTGAGAGATGA+TGG + chr6.2:4540647-4540666 MS.gene54744:CDS 35.0%
CTCGTTTATGATTACTTTGC+TGG - chr6.2:4540340-4540359 None:intergenic 35.0%
GATCAAATTATTCTACGCGT+GGG + chr6.2:4540459-4540478 MS.gene54744:CDS 35.0%
GCACATGATGAAAGAGATTA+TGG + chr6.2:4540535-4540554 MS.gene54744:CDS 35.0%
GTAAACAGCATTACAATCAG+GGG - chr6.2:4540729-4540748 None:intergenic 35.0%
! TCTTTAAGAACCACACAAGT+TGG - chr6.2:4540425-4540444 None:intergenic 35.0%
GAGATTGGTGAAATTGAGAG+TGG + chr6.2:4540302-4540321 MS.gene54744:CDS 40.0%
GCGTAATGATGAATTGCACA+AGG + chr6.2:4540250-4540269 MS.gene54744:CDS 40.0%
GGATCAAATTATTCTACGCG+TGG + chr6.2:4540458-4540477 MS.gene54744:CDS 40.0%
GGTGAAATTGAGAGTGGTAA+GGG + chr6.2:4540308-4540327 MS.gene54744:CDS 40.0%
TCAAATGGATCACATCACAG+TGG + chr6.2:4540775-4540794 MS.gene54744:CDS 40.0%
TGGTGAAATTGAGAGTGGTA+AGG + chr6.2:4540307-4540326 MS.gene54744:CDS 40.0%
AACGAGCTTGTGATACTCGT+TGG + chr6.2:4540354-4540373 MS.gene54744:CDS 45.0%
GCTGCATAATCCAACTTGTG+TGG + chr6.2:4540412-4540431 MS.gene54744:CDS 45.0%
GCTGTTTACATAGAGCGTGA+TGG + chr6.2:4540740-4540759 MS.gene54744:CDS 45.0%
! AGAAGTTGAGAGATGATGGC+TGG + chr6.2:4540651-4540670 MS.gene54744:CDS 45.0%
! GAAGTTGAGAGATGATGGCT+GGG + chr6.2:4540652-4540671 MS.gene54744:CDS 45.0%
ACTCGTTGGAGCTCACATCA+TGG + chr6.2:4540368-4540387 MS.gene54744:CDS 50.0%
TGGTCGCGCTCGTCGTCAAA+TGG + chr6.2:4540760-4540779 MS.gene54744:CDS 60.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 4540247 4540797 4540247 ID=MS.gene54744
chr6.2 mRNA 4540247 4540797 4540247 ID=MS.gene54744.t1;Parent=MS.gene54744
chr6.2 exon 4540247 4540797 4540247 ID=MS.gene54744.t1.exon1;Parent=MS.gene54744.t1
chr6.2 CDS 4540247 4540797 4540247 ID=cds.MS.gene54744.t1;Parent=MS.gene54744.t1
Gene Sequence

>MS.gene54744

TAAGCGTAATGATGAATTGCACAAGGCCATATCAGATGAGATTATTAATTTGCTAGAGATTGGTGAAATTGAGAGTGGTAAGGGACAAAACCAGCAAAGTAATCATAAACGAGCTTGTGATACTCGTTGGAGCTCACATCATGGTTCTGTTTGTAGTATGATAAAGCTGCATAATCCAACTTGTGTGGTTCTTAAAGAAATTAGGCAAACTGGATCAAATTATTCTACGCGTGGGGATGCTAATGCTGCTTACAAACTTTTGAAATCATTTGAGTTCACATTGATTTTGCACATGATGAAAGAGATTATGGGAATTACTGATCGTCTTTGTCAAGCTTTACAACAGAAATCTCAAGATATACTTAATGCTATGCAATTAGTCAGCTCTACAAAAACATTAATTCAGAAGTTGAGAGATGATGGCTGGGATGATTTGTTGAAAAATGTGATATTATTTTGTGAAAAACATGACATCGATTCCCCTGATTGTAATGCTGTTTACATAGAGCGTGATGGTCGCGCTCGTCGTCAAATGGATCACATCACAGTGG
Protein sequence

>MS.gene54744.t1

UAUUUIAQGHIRUDYUFARDWUNUEWUGTKPAKUSUTSLUYSLELTSWFCLUYDKAAUSNLCGSURNUANWIKLFYAWGCUCCLQTFEIIUVHIDFAHDERDYGNYUSSLSSFTTEISRYTUCYAISQLYKNINSEVERUWLGUFVEKCDIILUKTUHRFPULUCCLHRAUWSRSSSNGSHHS