AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073230

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073230.t1 MTR_2g012700 82.787 122 21 0 1 122 1 122 5.05e-72 211
MS.gene073230.t1 MTR_2g062330 80.833 120 22 1 3 122 23 141 2.63e-66 197
MS.gene073230.t1 MTR_7g117590 33.846 130 67 4 7 119 44 171 1.03e-18 77.4
MS.gene073230.t1 MTR_7g117585 35.644 101 63 1 18 116 42 142 3.38e-16 70.1
MS.gene073230.t1 MTR_0010s0310 41.573 89 50 1 24 110 152 240 1.17e-14 68.2
MS.gene073230.t1 MTR_5g071410 40.000 80 48 0 37 116 186 265 8.57e-14 65.9
MS.gene073230.t1 MTR_3g008190 27.835 97 70 0 24 120 6 102 1.17e-13 62.4
MS.gene073230.t1 MTR_0010s0320 40.659 91 50 3 24 110 192 282 1.53e-11 60.1
MS.gene073230.t1 MTR_0010s0290 40.659 91 50 3 24 110 223 313 2.40e-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 4.3:+54928309 MS.gene073230:CDS
GAAGTTAATGGTGCTGAATT+AGG 0.163350 4.3:+54928250 MS.gene073230:CDS
AAAATTCCGATGTTCGTTAT+TGG 0.193608 4.3:+54928281 MS.gene073230:CDS
TACCAGTTTCTTCATTAAAA+AGG 0.201451 4.3:-54928503 None:intergenic
AAGATTGGAGTTGAAGTTAA+TGG 0.269384 4.3:+54928238 MS.gene073230:CDS
TGTATGCTACCGTCGTTAAC+TGG 0.283121 4.3:+54928670 MS.gene073230:CDS
CCTCGACGTGTTGCTGAGAA+TGG 0.340072 4.3:+54928453 MS.gene073230:CDS
TTTGGATGGAAACAATGTTT+TGG 0.356448 4.3:+54928327 MS.gene073230:CDS
AAGTTAATGGTGCTGAATTA+GGG 0.367629 4.3:+54928251 MS.gene073230:CDS
CAGTCAATAATCCTCCTAAT+AGG 0.398760 4.3:+54928646 MS.gene073230:CDS
ACGGTAGCATACATCCTATT+AGG 0.440754 4.3:-54928660 None:intergenic
GTATGCTACCGTCGTTAACT+GGG 0.530059 4.3:+54928671 MS.gene073230:CDS
AGCATGCATCAGAAATACAT+AGG 0.564126 4.3:+54928561 MS.gene073230:CDS
CTTGAAAAGTGCCTAAAAGT+TGG 0.570138 4.3:+54928606 MS.gene073230:CDS
AGAAATACATAGGGAGAGGA+TGG 0.573439 4.3:+54928571 MS.gene073230:CDS
CATCAGAAATACATAGGGAG+AGG 0.580360 4.3:+54928567 MS.gene073230:CDS
GCATGCATCAGAAATACATA+GGG 0.596673 4.3:+54928562 MS.gene073230:CDS
GTAGCATACATCCTATTAGG+AGG 0.633251 4.3:-54928657 None:intergenic
ATACTTCCAATAACGAACAT+CGG 0.641741 4.3:-54928287 None:intergenic
CCATTCTCAGCAACACGTCG+AGG 0.662672 4.3:-54928453 None:intergenic
GAATCAATCCCAGTTAACGA+CGG 0.716201 4.3:-54928679 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TACCAGTTTCTTCATTAAAA+AGG - chr4.3:54928506-54928525 None:intergenic 25.0%
!! AAATAATGTCACCAACTTTT+AGG - chr4.3:54928620-54928639 None:intergenic 25.0%
!! TAATGTTACTGCATCTATTT+TGG + chr4.3:54928309-54928328 MS.gene073230:CDS 25.0%
AAAATTCCGATGTTCGTTAT+TGG + chr4.3:54928281-54928300 MS.gene073230:CDS 30.0%
AAGATTGGAGTTGAAGTTAA+TGG + chr4.3:54928238-54928257 MS.gene073230:CDS 30.0%
ATACTTCCAATAACGAACAT+CGG - chr4.3:54928290-54928309 None:intergenic 30.0%
! AAGTTAATGGTGCTGAATTA+GGG + chr4.3:54928251-54928270 MS.gene073230:CDS 30.0%
! CTCCTTTTTAATGAAGAAAC+TGG + chr4.3:54928501-54928520 MS.gene073230:CDS 30.0%
! TCATGTTGTTAAGTTGTTGT+TGG + chr4.3:54928383-54928402 MS.gene073230:intron 30.0%
! TTTGGATGGAAACAATGTTT+TGG + chr4.3:54928327-54928346 MS.gene073230:CDS 30.0%
AGCATGCATCAGAAATACAT+AGG + chr4.3:54928561-54928580 MS.gene073230:CDS 35.0%
CAGTCAATAATCCTCCTAAT+AGG + chr4.3:54928646-54928665 MS.gene073230:CDS 35.0%
GCATGCATCAGAAATACATA+GGG + chr4.3:54928562-54928581 MS.gene073230:CDS 35.0%
! GAAGTTAATGGTGCTGAATT+AGG + chr4.3:54928250-54928269 MS.gene073230:CDS 35.0%
!! CTTGAAAAGTGCCTAAAAGT+TGG + chr4.3:54928606-54928625 MS.gene073230:CDS 35.0%
!! GTTACTGCATCTATTTTGGA+TGG + chr4.3:54928313-54928332 MS.gene073230:CDS 35.0%
!!! GGAAACAATGTTTTGGTTAG+TGG + chr4.3:54928334-54928353 MS.gene073230:intron 35.0%
ACGGTAGCATACATCCTATT+AGG - chr4.3:54928663-54928682 None:intergenic 40.0%
AGAAATACATAGGGAGAGGA+TGG + chr4.3:54928571-54928590 MS.gene073230:CDS 40.0%
CATCAGAAATACATAGGGAG+AGG + chr4.3:54928567-54928586 MS.gene073230:CDS 40.0%
GTAGCATACATCCTATTAGG+AGG - chr4.3:54928660-54928679 None:intergenic 40.0%
GTATGCTACCGTCGTTAACT+GGG + chr4.3:54928671-54928690 MS.gene073230:CDS 45.0%
TGTATGCTACCGTCGTTAAC+TGG + chr4.3:54928670-54928689 MS.gene073230:CDS 45.0%
CCATTCTCAGCAACACGTCG+AGG - chr4.3:54928456-54928475 None:intergenic 55.0%
! CCTCGACGTGTTGCTGAGAA+TGG + chr4.3:54928453-54928472 MS.gene073230:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 54928232 54928698 54928232 ID=MS.gene073230
chr4.3 mRNA 54928232 54928698 54928232 ID=MS.gene073230.t1;Parent=MS.gene073230
chr4.3 exon 54928232 54928348 54928232 ID=MS.gene073230.t1.exon1;Parent=MS.gene073230.t1
chr4.3 CDS 54928232 54928348 54928232 ID=cds.MS.gene073230.t1;Parent=MS.gene073230.t1
chr4.3 exon 54928447 54928698 54928447 ID=MS.gene073230.t1.exon2;Parent=MS.gene073230.t1
chr4.3 CDS 54928447 54928698 54928447 ID=cds.MS.gene073230.t1;Parent=MS.gene073230.t1
Gene Sequence

>MS.gene073230

ATGAATAAGATTGGAGTTGAAGTTAATGGTGCTGAATTAGGGAATCTTCAAAATTCCGATGTTCGTTATTGGAAGTATAATGTTACTGCATCTATTTTGGATGGAAACAATGTTTTGGTTAGTGGCATTTATGAAGCATTTTTTGTTGTTTTCATGTTGTTAAGTTGTTGTTGGTTAATTATAATTTGTATGATTTCTTGACAAATCTATTGTAGACTTTTCCTCGACGTGTTGCTGAGAATGGTTTGTATATCAATCAATCTAAAATTCTCCTTTTTAATGAAGAAACTGGTAAATCTTATGACTTTGATGTTCGCACTGCGTCAAGAAGCATGCATCAGAAATACATAGGGAGAGGATGGTACGACTTTGTTCTTGAAAAGTGCCTAAAAGTTGGTGACATTATTTTGTTCACAGTCAATAATCCTCCTAATAGGATGTATGCTACCGTCGTTAACTGGGATTGA
Protein sequence

>MS.gene073230.t1

MNKIGVEVNGAELGNLQNSDVRYWKYNVTASILDGNNVLTFPRRVAENGLYINQSKILLFNEETGKSYDFDVRTASRSMHQKYIGRGWYDFVLEKCLKVGDIILFTVNNPPNRMYATVVNWD