AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069432

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069432.t1 MTR_2g012700 85.246 122 18 0 1 122 1 122 5.84e-76 221
MS.gene069432.t1 MTR_2g062330 81.667 120 21 1 3 122 23 141 1.38e-68 203
MS.gene069432.t1 MTR_7g117590 35.385 130 65 5 7 119 44 171 1.98e-20 81.6
MS.gene069432.t1 MTR_7g117585 34.653 101 64 1 18 116 42 142 3.05e-17 72.8
MS.gene069432.t1 MTR_0010s0310 41.758 91 51 1 22 110 150 240 1.81e-16 72.8
MS.gene069432.t1 MTR_5g071410 35.644 101 63 1 18 116 165 265 3.90e-16 72.4
MS.gene069432.t1 MTR_3g008190 27.835 97 70 0 24 120 6 102 5.76e-15 65.9
MS.gene069432.t1 MTR_6g087720 32.653 98 65 1 12 108 202 299 4.64e-13 64.3
MS.gene069432.t1 MTR_0010s0320 39.560 91 51 3 24 110 192 282 3.57e-12 61.6
MS.gene069432.t1 MTR_0010s0290 39.560 91 51 3 24 110 223 313 6.23e-12 61.2
MS.gene069432.t1 MTR_6g477950 33.333 81 54 0 39 119 64 144 1.82e-11 59.7
MS.gene069432.t1 MTR_5g078270 34.066 91 58 1 22 110 208 298 2.25e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 19 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATGTTACTGCTTCTATTT+TGG 0.123735 2.2:+30531425 MS.gene069432:CDS
AAAATTCCAATGTTCATTAT+TGG 0.164838 2.2:+30531397 MS.gene069432:CDS
TGTATGCTACCGTTGTTAAC+TGG 0.321339 2.2:+30531786 MS.gene069432:CDS
GAGATTGGAGTTGAAGTTAA+TGG 0.344431 2.2:+30531354 MS.gene069432:CDS
TTTGGATGGAAACAATGTTT+TGG 0.356448 2.2:+30531443 MS.gene069432:CDS
CAGTCAATAATCCTCCTAAT+AGG 0.398760 2.2:+30531762 MS.gene069432:CDS
ACGGTAGCATACATCCTATT+AGG 0.420048 2.2:-30531776 None:intergenic
CCTCGACGTATTGCTGAGAA+TGG 0.434646 2.2:+30531569 MS.gene069432:CDS
GTATGCTACCGTTGTTAACT+GGG 0.479341 2.2:+30531787 MS.gene069432:CDS
TACCAGTTTCTTCATCAAAA+CGG 0.491005 2.2:-30531619 None:intergenic
ATACTTCCAATAATGAACAT+TGG 0.558425 2.2:-30531403 None:intergenic
AGCATGCATCAGAAATACAT+AGG 0.564126 2.2:+30531677 MS.gene069432:CDS
CTTGAAAAGTGCCTAAAAGT+TGG 0.570138 2.2:+30531722 MS.gene069432:CDS
AGAAATACATAGGGAGAGGA+TGG 0.573439 2.2:+30531687 MS.gene069432:CDS
CATCAGAAATACATAGGGAG+AGG 0.580360 2.2:+30531683 MS.gene069432:CDS
GCATGCATCAGAAATACATA+GGG 0.596673 2.2:+30531678 MS.gene069432:CDS
GTAGCATACATCCTATTAGG+AGG 0.620880 2.2:-30531773 None:intergenic
CCATTCTCAGCAATACGTCG+AGG 0.710417 2.2:-30531569 None:intergenic
GAATCAGTCCCAGTTAACAA+CGG 0.716415 2.2:-30531795 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATTCCAATGTTCATTAT+TGG + chr2.2:30531397-30531416 MS.gene069432:CDS 20.0%
! ATACTTCCAATAATGAACAT+TGG - chr2.2:30531406-30531425 None:intergenic 25.0%
!! TAATGTTACTGCTTCTATTT+TGG + chr2.2:30531425-30531444 MS.gene069432:CDS 25.0%
TACCAGTTTCTTCATCAAAA+CGG - chr2.2:30531622-30531641 None:intergenic 30.0%
! AAATAACGTCACCAACTTTT+AGG - chr2.2:30531736-30531755 None:intergenic 30.0%
! TTTGGATGGAAACAATGTTT+TGG + chr2.2:30531443-30531462 MS.gene069432:CDS 30.0%
AGCATGCATCAGAAATACAT+AGG + chr2.2:30531677-30531696 MS.gene069432:CDS 35.0%
CAGTCAATAATCCTCCTAAT+AGG + chr2.2:30531762-30531781 MS.gene069432:CDS 35.0%
GAGATTGGAGTTGAAGTTAA+TGG + chr2.2:30531354-30531373 MS.gene069432:CDS 35.0%
GCATGCATCAGAAATACATA+GGG + chr2.2:30531678-30531697 MS.gene069432:CDS 35.0%
!! CTTGAAAAGTGCCTAAAAGT+TGG + chr2.2:30531722-30531741 MS.gene069432:CDS 35.0%
!! GTTACTGCTTCTATTTTGGA+TGG + chr2.2:30531429-30531448 MS.gene069432:CDS 35.0%
!!! GGAAACAATGTTTTGGTTAG+TGG + chr2.2:30531450-30531469 MS.gene069432:intron 35.0%
ACGGTAGCATACATCCTATT+AGG - chr2.2:30531779-30531798 None:intergenic 40.0%
AGAAATACATAGGGAGAGGA+TGG + chr2.2:30531687-30531706 MS.gene069432:CDS 40.0%
CATCAGAAATACATAGGGAG+AGG + chr2.2:30531683-30531702 MS.gene069432:CDS 40.0%
GTAGCATACATCCTATTAGG+AGG - chr2.2:30531776-30531795 None:intergenic 40.0%
GTATGCTACCGTTGTTAACT+GGG + chr2.2:30531787-30531806 MS.gene069432:CDS 40.0%
TGTATGCTACCGTTGTTAAC+TGG + chr2.2:30531786-30531805 MS.gene069432:CDS 40.0%
!! CTCCGTTTTGATGAAGAAAC+TGG + chr2.2:30531617-30531636 MS.gene069432:CDS 40.0%
CCATTCTCAGCAATACGTCG+AGG - chr2.2:30531572-30531591 None:intergenic 50.0%
CCTCGACGTATTGCTGAGAA+TGG + chr2.2:30531569-30531588 MS.gene069432:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 30531348 30531814 30531348 ID=MS.gene069432
chr2.2 mRNA 30531348 30531814 30531348 ID=MS.gene069432.t1;Parent=MS.gene069432
chr2.2 exon 30531348 30531464 30531348 ID=MS.gene069432.t1.exon1;Parent=MS.gene069432.t1
chr2.2 CDS 30531348 30531464 30531348 ID=cds.MS.gene069432.t1;Parent=MS.gene069432.t1
chr2.2 exon 30531563 30531814 30531563 ID=MS.gene069432.t1.exon2;Parent=MS.gene069432.t1
chr2.2 CDS 30531563 30531814 30531563 ID=cds.MS.gene069432.t1;Parent=MS.gene069432.t1
Gene Sequence

>MS.gene069432

ATGAATGAGATTGGAGTTGAAGTTAATGGTGCTGAATTAGCGAATCTTCAAAATTCCAATGTTCATTATTGGAAGTATAATGTTACTGCTTCTATTTTGGATGGAAACAATGTTTTGGTTAGTGGCATTTACGAAACATTTTTTTTTGTTTTCATGTTGTTAAGTTGTTGTTGATTAATTATAATTTGTATGATTTCATGACAAATCTATTGTAGAATTTTCCTCGACGTATTGCTGAGAATGGTTTGTATATCAATCAATCTAAAATTCTCCGTTTTGATGAAGAAACTGGTAAATCTTATGATTGTGATGTTCACACTGCGTCAAGAAGCATGCATCAGAAATACATAGGGAGAGGATGGTACGACTTTGTTCTTGAAAAGTGCCTAAAAGTTGGTGACGTTATTTTGTTCACAGTCAATAATCCTCCTAATAGGATGTATGCTACCGTTGTTAACTGGGACTGA
Protein sequence

>MS.gene069432.t1

MNEIGVEVNGAELANLQNSNVHYWKYNVTASILDGNNVLNFPRRIAENGLYINQSKILRFDEETGKSYDCDVHTASRSMHQKYIGRGWYDFVLEKCLKVGDVILFTVNNPPNRMYATVVNWD