AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene046006

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene046006.t1 MTR_2g012700 83.607 122 20 0 1 122 1 122 5.56e-73 213
MS.gene046006.t1 MTR_2g062330 81.667 120 21 1 3 122 23 141 3.70e-67 199
MS.gene046006.t1 MTR_7g117590 33.077 130 68 4 7 119 44 171 9.65e-18 74.7
MS.gene046006.t1 MTR_7g117585 34.653 101 64 1 18 116 42 142 2.48e-15 67.8
MS.gene046006.t1 MTR_0010s0310 41.573 89 50 1 24 110 152 240 3.75e-14 66.6
MS.gene046006.t1 MTR_3g008190 27.835 97 70 0 24 120 6 102 1.39e-13 62.4
MS.gene046006.t1 MTR_5g071410 38.750 80 49 0 37 116 186 265 4.82e-13 63.9
MS.gene046006.t1 MTR_0010s0320 40.659 91 50 3 24 110 192 282 2.01e-11 59.7
MS.gene046006.t1 MTR_0010s0290 40.659 91 50 3 24 110 223 313 3.14e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 21 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATGTTACTGCATCTATTT+TGG 0.128704 4.4:+58373426 MS.gene046006:CDS
GAAGTTAATGGTGCTGAATT+AGG 0.163350 4.4:+58373367 MS.gene046006:CDS
AAAATTCCGATGTTCGTTAT+TGG 0.193608 4.4:+58373398 MS.gene046006:CDS
TACCAGTTTCTTCATTAAAA+AGG 0.201451 4.4:-58373620 None:intergenic
AAGATTGGAGTTGAAGTTAA+TGG 0.269384 4.4:+58373355 MS.gene046006:CDS
TGTATGCTACCGTCGTTAAC+TGG 0.283121 4.4:+58373787 MS.gene046006:CDS
CCTCGACGTGTTGCTGAGAA+TGG 0.340072 4.4:+58373570 MS.gene046006:CDS
TTTGGATGGAAACAATGTTT+TGG 0.356448 4.4:+58373444 MS.gene046006:CDS
AAGTTAATGGTGCTGAATTA+GGG 0.367629 4.4:+58373368 MS.gene046006:CDS
CAGTCAATAATCCTCCTAAT+AGG 0.398760 4.4:+58373763 MS.gene046006:CDS
ACGGTAGCATACATCCTATT+AGG 0.440754 4.4:-58373777 None:intergenic
GTATGCTACCGTCGTTAACT+GGG 0.530059 4.4:+58373788 MS.gene046006:CDS
AGCATGCATCAGAAATACAT+AGG 0.564126 4.4:+58373678 MS.gene046006:CDS
CTTGAAAAGTGCCTAAAAGT+TGG 0.570138 4.4:+58373723 MS.gene046006:CDS
AGAAATACATAGGGAGAGGA+TGG 0.573439 4.4:+58373688 MS.gene046006:CDS
CATCAGAAATACATAGGGAG+AGG 0.580360 4.4:+58373684 MS.gene046006:CDS
GCATGCATCAGAAATACATA+GGG 0.596673 4.4:+58373679 MS.gene046006:CDS
GTAGCATACATCCTATTAGG+AGG 0.633251 4.4:-58373774 None:intergenic
ATACTTCCAATAACGAACAT+CGG 0.641741 4.4:-58373404 None:intergenic
CCATTCTCAGCAACACGTCG+AGG 0.662672 4.4:-58373570 None:intergenic
GAATCAATCCCAGTTAACGA+CGG 0.716201 4.4:-58373796 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TACCAGTTTCTTCATTAAAA+AGG - chr4.4:58373623-58373642 None:intergenic 25.0%
!! AAATAATGTCACCAACTTTT+AGG - chr4.4:58373737-58373756 None:intergenic 25.0%
!! TAATGTTACTGCATCTATTT+TGG + chr4.4:58373426-58373445 MS.gene046006:CDS 25.0%
AAAATTCCGATGTTCGTTAT+TGG + chr4.4:58373398-58373417 MS.gene046006:CDS 30.0%
AAGATTGGAGTTGAAGTTAA+TGG + chr4.4:58373355-58373374 MS.gene046006:CDS 30.0%
ATACTTCCAATAACGAACAT+CGG - chr4.4:58373407-58373426 None:intergenic 30.0%
! AAGTTAATGGTGCTGAATTA+GGG + chr4.4:58373368-58373387 MS.gene046006:CDS 30.0%
! CTCCTTTTTAATGAAGAAAC+TGG + chr4.4:58373618-58373637 MS.gene046006:CDS 30.0%
! TCATGTTGTTAAGTTGTTGT+TGG + chr4.4:58373500-58373519 MS.gene046006:intron 30.0%
! TTTGGATGGAAACAATGTTT+TGG + chr4.4:58373444-58373463 MS.gene046006:CDS 30.0%
AGCATGCATCAGAAATACAT+AGG + chr4.4:58373678-58373697 MS.gene046006:CDS 35.0%
CAGTCAATAATCCTCCTAAT+AGG + chr4.4:58373763-58373782 MS.gene046006:CDS 35.0%
GCATGCATCAGAAATACATA+GGG + chr4.4:58373679-58373698 MS.gene046006:CDS 35.0%
! GAAGTTAATGGTGCTGAATT+AGG + chr4.4:58373367-58373386 MS.gene046006:CDS 35.0%
!! CTTGAAAAGTGCCTAAAAGT+TGG + chr4.4:58373723-58373742 MS.gene046006:CDS 35.0%
!! GTTACTGCATCTATTTTGGA+TGG + chr4.4:58373430-58373449 MS.gene046006:CDS 35.0%
!!! GGAAACAATGTTTTGGTTAG+TGG + chr4.4:58373451-58373470 MS.gene046006:intron 35.0%
ACGGTAGCATACATCCTATT+AGG - chr4.4:58373780-58373799 None:intergenic 40.0%
AGAAATACATAGGGAGAGGA+TGG + chr4.4:58373688-58373707 MS.gene046006:CDS 40.0%
CATCAGAAATACATAGGGAG+AGG + chr4.4:58373684-58373703 MS.gene046006:CDS 40.0%
GTAGCATACATCCTATTAGG+AGG - chr4.4:58373777-58373796 None:intergenic 40.0%
GTATGCTACCGTCGTTAACT+GGG + chr4.4:58373788-58373807 MS.gene046006:CDS 45.0%
TGTATGCTACCGTCGTTAAC+TGG + chr4.4:58373787-58373806 MS.gene046006:CDS 45.0%
CCATTCTCAGCAACACGTCG+AGG - chr4.4:58373573-58373592 None:intergenic 55.0%
! CCTCGACGTGTTGCTGAGAA+TGG + chr4.4:58373570-58373589 MS.gene046006:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 58373349 58373815 58373349 ID=MS.gene046006
chr4.4 mRNA 58373349 58373815 58373349 ID=MS.gene046006.t1;Parent=MS.gene046006
chr4.4 exon 58373349 58373465 58373349 ID=MS.gene046006.t1.exon1;Parent=MS.gene046006.t1
chr4.4 CDS 58373349 58373465 58373349 ID=cds.MS.gene046006.t1;Parent=MS.gene046006.t1
chr4.4 exon 58373564 58373815 58373564 ID=MS.gene046006.t1.exon2;Parent=MS.gene046006.t1
chr4.4 CDS 58373564 58373815 58373564 ID=cds.MS.gene046006.t1;Parent=MS.gene046006.t1
Gene Sequence

>MS.gene046006

ATGAATAAGATTGGAGTTGAAGTTAATGGTGCTGAATTAGGGAATCTTCAAAATTCCGATGTTCGTTATTGGAAGTATAATGTTACTGCATCTATTTTGGATGGAAACAATGTTTTGGTTAGTGGCATTTATGAAGCATTTTTTGTTGTTTTCATGTTGTTAAGTTGTTGTTGGTTAATTATAATTTGTATGATTTCTTGACAAATCTATTGTAGACTTTTCCTCGACGTGTTGCTGAGAATGGTTTGTATATCAATCAATCTAAAATTCTCCTTTTTAATGAAGAAACTGGTAAATCTTATGACTTTGATGTTCACACTGCGTCAAGAAGCATGCATCAGAAATACATAGGGAGAGGATGGTACGACTTTGTTCTTGAAAAGTGCCTAAAAGTTGGTGACATTATTTTGTTCACAGTCAATAATCCTCCTAATAGGATGTATGCTACCGTCGTTAACTGGGATTGA
Protein sequence

>MS.gene046006.t1

MNKIGVEVNGAELGNLQNSDVRYWKYNVTASILDGNNVLTFPRRVAENGLYINQSKILLFNEETGKSYDFDVHTASRSMHQKYIGRGWYDFVLEKCLKVGDIILFTVNNPPNRMYATVVNWD