AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene045260

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045260.t1 MTR_3g085510 98.925 93 1 0 1 93 1 93 2.23e-64 189
MS.gene045260.t1 MTR_8g080380 78.495 93 20 0 1 93 92 184 3.90e-52 161
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045260.t1 AT4G40042 79.747 79 16 0 1 79 1 79 1.26e-43 137
MS.gene045260.t1 AT2G22425 71.591 88 25 0 1 88 1 88 1.76e-41 131
MS.gene045260.t1 AT2G22425 71.591 88 25 0 1 88 1 88 1.76e-41 131

Find 24 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGAGGATGGCGGTTGAAAA+AGG 0.272451 3.2:-73402297 None:intergenic
CATTGGTGACTGTCCCAAAT+TGG 0.297025 3.2:+73402273 MS.gene045260:CDS
GCATTTGCTGTGGTTGCATT+TGG 0.308000 3.2:+73402182 MS.gene045260:CDS
TTCTTCTTTGAATTCACAAT+AGG 0.417935 3.2:-73402371 None:intergenic
GAAGAAACCCATTAAGAAGT+AGG 0.438658 3.2:+73402388 MS.gene045260:CDS
TCTGCATTAGCTTCTCTGCT+AGG 0.440951 3.2:-73402148 None:intergenic
ATAGGAGATAGCTGTGGCTT+CGG 0.450784 3.2:-73402353 None:intergenic
GCTGTGGTTGCATTTGGAAC+GGG 0.459654 3.2:+73402188 MS.gene045260:CDS
TGCTGTGGTTGCATTTGGAA+CGG 0.510809 3.2:+73402187 MS.gene045260:CDS
AAGAAACCCATTAAGAAGTA+GGG 0.531311 3.2:+73402389 MS.gene045260:CDS
TTCATCAGATGGATTGGCAA+GGG 0.536217 3.2:+73402120 None:intergenic
CCGCCATCCTCTCAAGTGGT+TGG 0.536748 3.2:+73402307 MS.gene045260:CDS
TCAACCGCCATCCTCTCAAG+TGG 0.553865 3.2:+73402303 MS.gene045260:CDS
GATCCAACCACTTGAGAGGA+TGG 0.566183 3.2:-73402310 None:intergenic
CTTCATCAGATGGATTGGCA+AGG 0.566563 3.2:+73402119 None:intergenic
CTTGGATCCAACCACTTGAG+AGG 0.567895 3.2:-73402314 None:intergenic
AATGTTGCTTGCATTTGCTG+TGG 0.601891 3.2:+73402172 MS.gene045260:CDS
ACGATGATGCTCATATATGC+TGG 0.624836 3.2:+73402233 MS.gene045260:CDS
TGGTGTTGTTCTCACCACAT+TGG 0.662379 3.2:+73402256 MS.gene045260:CDS
CAAGTGGTTGGATCCAAGTG+AGG 0.664517 3.2:+73402319 MS.gene045260:CDS
ATGATGCTCATATATGCTGG+TGG 0.699379 3.2:+73402236 MS.gene045260:CDS
CCAACCACTTGAGAGGATGG+CGG 0.730520 3.2:-73402307 None:intergenic
ATTTGGGACAGTCACCAATG+TGG 0.730637 3.2:-73402270 None:intergenic
TTCACAATAGGAGATAGCTG+TGG 0.732645 3.2:-73402359 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCTTCTTTGAATTCACAAT+AGG - chr3.2:73402374-73402393 None:intergenic 25.0%
ACGATGATGCTCATATATGC+TGG + chr3.2:73402233-73402252 MS.gene045260:CDS 40.0%
ATGATGCTCATATATGCTGG+TGG + chr3.2:73402236-73402255 MS.gene045260:CDS 40.0%
GGTTGAAAAAGGGCCAATTT+GGG - chr3.2:73402289-73402308 None:intergenic 40.0%
TTCACAATAGGAGATAGCTG+TGG - chr3.2:73402362-73402381 None:intergenic 40.0%
! AATGTTGCTTGCATTTGCTG+TGG + chr3.2:73402172-73402191 MS.gene045260:CDS 40.0%
ATAGGAGATAGCTGTGGCTT+CGG - chr3.2:73402356-73402375 None:intergenic 45.0%
CGGTTGAAAAAGGGCCAATT+TGG - chr3.2:73402290-73402309 None:intergenic 45.0%
TGCTGTGGTTGCATTTGGAA+CGG + chr3.2:73402187-73402206 MS.gene045260:CDS 45.0%
! AGAGGATGGCGGTTGAAAAA+GGG - chr3.2:73402299-73402318 None:intergenic 45.0%
! ATTTGGGACAGTCACCAATG+TGG - chr3.2:73402273-73402292 None:intergenic 45.0%
! CATTGGTGACTGTCCCAAAT+TGG + chr3.2:73402273-73402292 MS.gene045260:CDS 45.0%
! GGATGCTTTTCTACCTCACT+TGG - chr3.2:73402335-73402354 None:intergenic 45.0%
! TCTGCATTAGCTTCTCTGCT+AGG - chr3.2:73402151-73402170 None:intergenic 45.0%
!! GCATTTGCTGTGGTTGCATT+TGG + chr3.2:73402182-73402201 MS.gene045260:CDS 45.0%
!! TGGTGTTGTTCTCACCACAT+TGG + chr3.2:73402256-73402275 MS.gene045260:CDS 45.0%
CAAGTGGTTGGATCCAAGTG+AGG + chr3.2:73402319-73402338 MS.gene045260:CDS 50.0%
CTTGGATCCAACCACTTGAG+AGG - chr3.2:73402317-73402336 None:intergenic 50.0%
GATCCAACCACTTGAGAGGA+TGG - chr3.2:73402313-73402332 None:intergenic 50.0%
! GAGAGGATGGCGGTTGAAAA+AGG - chr3.2:73402300-73402319 None:intergenic 50.0%
! GCTGTGGTTGCATTTGGAAC+GGG + chr3.2:73402188-73402207 MS.gene045260:CDS 50.0%
CCAACCACTTGAGAGGATGG+CGG - chr3.2:73402310-73402329 None:intergenic 55.0%
TCAACCGCCATCCTCTCAAG+TGG + chr3.2:73402303-73402322 MS.gene045260:CDS 55.0%
CCGCCATCCTCTCAAGTGGT+TGG + chr3.2:73402307-73402326 MS.gene045260:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 73402128 73402409 73402128 ID=MS.gene045260
chr3.2 mRNA 73402128 73402409 73402128 ID=MS.gene045260.t1;Parent=MS.gene045260
chr3.2 exon 73402128 73402409 73402128 ID=MS.gene045260.t1.exon1;Parent=MS.gene045260.t1
chr3.2 CDS 73402128 73402409 73402128 ID=cds.MS.gene045260.t1;Parent=MS.gene045260.t1
Gene Sequence

>MS.gene045260

ATGGATTGGCAAGGGCAAAACCTAGCAGAGAAGCTAATGCAGATAATGTTGCTTGCATTTGCTGTGGTTGCATTTGGAACGGGATATCTTACAGCTTCTTTCAAGACGATGATGCTCATATATGCTGGTGGTGTTGTTCTCACCACATTGGTGACTGTCCCAAATTGGCCCTTTTTCAACCGCCATCCTCTCAAGTGGTTGGATCCAAGTGAGGTAGAAAAGCATCCGAAGCCACAGCTATCTCCTATTGTGAATTCAAAGAAGAAACCCATTAAGAAGTAG
Protein sequence

>MS.gene045260.t1

MDWQGQNLAEKLMQIMLLAFAVVAFGTGYLTASFKTMMLIYAGGVVLTTLVTVPNWPFFNRHPLKWLDPSEVEKHPKPQLSPIVNSKKKPIKK