AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene79108

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79108.t1 MTR_3g085510 98.925 93 1 0 1 93 1 93 2.23e-64 189
MS.gene79108.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.gene79108.t1 AT4G40042 79.747 79 16 0 1 79 1 79 1.26e-43 137
MS.gene79108.t1 AT2G22425 71.591 88 25 0 1 88 1 88 1.76e-41 131
MS.gene79108.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:-73357326 None:intergenic
CATTGGTGACTGTCCCAAAT+TGG 0.297025 3.2:+73357302 MS.gene79108:CDS
GCATTTGCTGTGGTTGCATT+TGG 0.308000 3.2:+73357211 MS.gene79108:CDS
TTCTTCTTTGAATTCACAAT+AGG 0.417935 3.2:-73357400 None:intergenic
GAAGAAACCCATTAAGAAGT+AGG 0.438658 3.2:+73357417 MS.gene79108:CDS
TCTGCATTAGCTTCTCTGCT+AGG 0.440951 3.2:-73357177 None:intergenic
ATAGGAGATAGCTGTGGCTT+CGG 0.450784 3.2:-73357382 None:intergenic
GCTGTGGTTGCATTTGGAAC+GGG 0.459654 3.2:+73357217 MS.gene79108:CDS
TGCTGTGGTTGCATTTGGAA+CGG 0.510809 3.2:+73357216 MS.gene79108:CDS
AAGAAACCCATTAAGAAGTA+GGG 0.531311 3.2:+73357418 MS.gene79108:CDS
TTCATCAGATGGATTGGCAA+GGG 0.536217 3.2:+73357149 None:intergenic
CCGCCATCCTCTCAAGTGGT+TGG 0.536748 3.2:+73357336 MS.gene79108:CDS
TCAACCGCCATCCTCTCAAG+TGG 0.553865 3.2:+73357332 MS.gene79108:CDS
GATCCAACCACTTGAGAGGA+TGG 0.566183 3.2:-73357339 None:intergenic
CTTCATCAGATGGATTGGCA+AGG 0.566563 3.2:+73357148 None:intergenic
CTTGGATCCAACCACTTGAG+AGG 0.567895 3.2:-73357343 None:intergenic
AATGTTGCTTGCATTTGCTG+TGG 0.601891 3.2:+73357201 MS.gene79108:CDS
ACGATGATGCTCATATATGC+TGG 0.624836 3.2:+73357262 MS.gene79108:CDS
TGGTGTTGTTCTCACCACAT+TGG 0.662379 3.2:+73357285 MS.gene79108:CDS
CAAGTGGTTGGATCCAAGTG+AGG 0.664517 3.2:+73357348 MS.gene79108:CDS
ATGATGCTCATATATGCTGG+TGG 0.699379 3.2:+73357265 MS.gene79108:CDS
CCAACCACTTGAGAGGATGG+CGG 0.730520 3.2:-73357336 None:intergenic
ATTTGGGACAGTCACCAATG+TGG 0.730637 3.2:-73357299 None:intergenic
TTCACAATAGGAGATAGCTG+TGG 0.732645 3.2:-73357388 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCTTCTTTGAATTCACAAT+AGG - chr3.2:73357403-73357422 None:intergenic 25.0%
ACGATGATGCTCATATATGC+TGG + chr3.2:73357262-73357281 MS.gene79108:CDS 40.0%
ATGATGCTCATATATGCTGG+TGG + chr3.2:73357265-73357284 MS.gene79108:CDS 40.0%
GGTTGAAAAAGGGCCAATTT+GGG - chr3.2:73357318-73357337 None:intergenic 40.0%
TTCACAATAGGAGATAGCTG+TGG - chr3.2:73357391-73357410 None:intergenic 40.0%
! AATGTTGCTTGCATTTGCTG+TGG + chr3.2:73357201-73357220 MS.gene79108:CDS 40.0%
ATAGGAGATAGCTGTGGCTT+CGG - chr3.2:73357385-73357404 None:intergenic 45.0%
CGGTTGAAAAAGGGCCAATT+TGG - chr3.2:73357319-73357338 None:intergenic 45.0%
TGCTGTGGTTGCATTTGGAA+CGG + chr3.2:73357216-73357235 MS.gene79108:CDS 45.0%
! AGAGGATGGCGGTTGAAAAA+GGG - chr3.2:73357328-73357347 None:intergenic 45.0%
! ATTTGGGACAGTCACCAATG+TGG - chr3.2:73357302-73357321 None:intergenic 45.0%
! CATTGGTGACTGTCCCAAAT+TGG + chr3.2:73357302-73357321 MS.gene79108:CDS 45.0%
! GGATGCTTTTCTACCTCACT+TGG - chr3.2:73357364-73357383 None:intergenic 45.0%
! TCTGCATTAGCTTCTCTGCT+AGG - chr3.2:73357180-73357199 None:intergenic 45.0%
!! GCATTTGCTGTGGTTGCATT+TGG + chr3.2:73357211-73357230 MS.gene79108:CDS 45.0%
!! TGGTGTTGTTCTCACCACAT+TGG + chr3.2:73357285-73357304 MS.gene79108:CDS 45.0%
CAAGTGGTTGGATCCAAGTG+AGG + chr3.2:73357348-73357367 MS.gene79108:CDS 50.0%
CTTGGATCCAACCACTTGAG+AGG - chr3.2:73357346-73357365 None:intergenic 50.0%
GATCCAACCACTTGAGAGGA+TGG - chr3.2:73357342-73357361 None:intergenic 50.0%
! GAGAGGATGGCGGTTGAAAA+AGG - chr3.2:73357329-73357348 None:intergenic 50.0%
! GCTGTGGTTGCATTTGGAAC+GGG + chr3.2:73357217-73357236 MS.gene79108:CDS 50.0%
CCAACCACTTGAGAGGATGG+CGG - chr3.2:73357339-73357358 None:intergenic 55.0%
TCAACCGCCATCCTCTCAAG+TGG + chr3.2:73357332-73357351 MS.gene79108:CDS 55.0%
CCGCCATCCTCTCAAGTGGT+TGG + chr3.2:73357336-73357355 MS.gene79108:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 73357157 73357438 73357157 ID=MS.gene79108
chr3.2 mRNA 73357157 73357438 73357157 ID=MS.gene79108.t1;Parent=MS.gene79108
chr3.2 exon 73357157 73357438 73357157 ID=MS.gene79108.t1.exon1;Parent=MS.gene79108.t1
chr3.2 CDS 73357157 73357438 73357157 ID=cds.MS.gene79108.t1;Parent=MS.gene79108.t1
Gene Sequence

>MS.gene79108

ATGGATTGGCAAGGGCAAAACCTAGCAGAGAAGCTAATGCAGATAATGTTGCTTGCATTTGCTGTGGTTGCATTTGGAACGGGATATCTTACAGCTTCTTTCAAGACGATGATGCTCATATATGCTGGTGGTGTTGTTCTCACCACATTGGTGACTGTCCCAAATTGGCCCTTTTTCAACCGCCATCCTCTCAAGTGGTTGGATCCAAGTGAGGTAGAAAAGCATCCGAAGCCACAGCTATCTCCTATTGTGAATTCAAAGAAGAAACCCATTAAGAAGTAG
Protein sequence

>MS.gene79108.t1

MDWQGQNLAEKLMQIMLLAFAVVAFGTGYLTASFKTMMLIYAGGVVLTTLVTVPNWPFFNRHPLKWLDPSEVEKHPKPQLSPIVNSKKKPIKK