AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010647

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGATTGACTTTGTTCGTAAA+TGG 0.194038 2:+75955709 MsaT010647.1:CDS
CTTTGTTCGTAAATGGTATA+TGG 0.238429 2:+75955716 MsaT010647.1:CDS
ATCACAGTTTCGAAGAATTT+AGG 0.258276 2:-75955559 None:intergenic
AAGGCTGGTATGAATTTGTT+AGG 0.290399 2:+75958069 MsaT010647.1:CDS
GATGGCAATCTCACAAGTTT+TGG 0.322191 2:-75957931 None:intergenic
ATTGTTCGCCGTTCTGCTCT+TGG 0.322716 2:+75958164 MsaT010647.1:CDS
CCTTTCAGCGATGAGGAGTT+TGG 0.326336 2:-75955201 None:intergenic
GATGAGGAGTTTGGCTTTGA+TGG 0.356109 2:-75955192 None:intergenic
TTAAATCAGTACATGGAATC+TGG 0.356959 2:+75955816 MsaT010647.1:CDS
CCAAGTACAGATTTCCGTTT+GGG 0.357381 2:-75955773 None:intergenic
GTACATGGAATCTGGGATTC+AGG 0.367539 2:+75955824 MsaT010647.1:CDS
CAAAATATCGTACCTCTTTG+AGG 0.387393 2:-75955235 None:intergenic
GTCTAAAATTAACCTTTACT+TGG 0.409383 2:+75957965 MsaT010647.1:CDS
TAATCCAGTAGTATACATTC+TGG 0.423183 2:-75955796 None:intergenic
AACCTTTACTTGGTGGGTAG+TGG 0.423355 2:+75957975 MsaT010647.1:CDS
ATCAACACATATACCAGATC+TGG 0.450296 2:-75955586 None:intergenic
CCCAAACGGAAATCTGTACT+TGG 0.452306 2:+75955773 MsaT010647.1:CDS
GCCAAGTACAGATTTCCGTT+TGG 0.455129 2:-75955774 None:intergenic
AACTGTGATTCATCCAGATC+TGG 0.470305 2:+75955573 MsaT010647.1:CDS
TAAAATTAACCTTTACTTGG+TGG 0.480947 2:+75957968 MsaT010647.1:CDS
TTGGCCAGAATGTATACTAC+TGG 0.499830 2:+75955792 MsaT010647.1:CDS
AGGCTGGTATGAATTTGTTA+GGG 0.513416 2:+75958070 MsaT010647.1:CDS
CTCACAAACAGCTTATCAGT+TGG 0.522596 2:-75958140 None:intergenic
TAAATCAGTACATGGAATCT+GGG 0.526053 2:+75955817 MsaT010647.1:CDS
AAAATTAACCTTTACTTGGT+GGG 0.526436 2:+75957969 MsaT010647.1:CDS
CATTTACGAACAAAGTCAAT+CGG 0.528619 2:-75955708 None:intergenic
GAGCTTAGAGCTAGTAACCT+TGG 0.530044 2:+75955738 MsaT010647.1:CDS
AAAGGTATCTTACAGAAGGC+TGG 0.532878 2:+75958054 MsaT010647.1:CDS
TTAGAGCTAGTAACCTTGGA+TGG 0.533014 2:+75955742 MsaT010647.1:CDS
CTGGGATTCAGGTGGCACTA+AGG 0.535418 2:+75955835 MsaT010647.1:CDS
CTCCACTACCCACCAAGTAA+AGG 0.550190 2:-75957977 None:intergenic
GGATGGATTAAGCTCCCAAA+CGG 0.561998 2:+75955759 MsaT010647.1:CDS
AATGAAAGGTATCTTACAGA+AGG 0.566126 2:+75958050 MsaT010647.1:CDS
CCAAACTCCTCATCGCTGAA+AGG 0.570191 2:+75955201 MsaT010647.1:CDS
ATATCGTACCTCTTTGAGGA+AGG 0.570920 2:-75955231 None:intergenic
TTCAATTCCTTTCAGCGATG+AGG 0.573510 2:-75955208 None:intergenic
TTGGGAGCTTAATCCATCCA+AGG 0.576601 2:-75955755 None:intergenic
TACTGGATTAAATCAGTACA+TGG 0.576769 2:+75955809 MsaT010647.1:CDS
TATTGATGTAGGGTTTGCAA+AGG 0.577704 2:+75955511 MsaT010647.1:intron
TATTGTTTCTGAAGGACAGA+AGG 0.579351 2:+75957270 MsaT010647.1:intron
GGAGAAAGTTCTTCCAACAA+TGG 0.583481 2:+75955532 MsaT010647.1:CDS
GAATATATTCTCAAAATGAA+AGG 0.587129 2:+75958036 MsaT010647.1:CDS
TTGTTAGGGATAACAAGCTG+AGG 0.605523 2:+75958084 MsaT010647.1:CDS
AGGGATAACAAGCTGAGGGT+GGG 0.610095 2:+75958089 MsaT010647.1:CDS
TAGGGATAACAAGCTGAGGG+TGG 0.620885 2:+75958088 MsaT010647.1:CDS
TGTTAGGGATAACAAGCTGA+GGG 0.634705 2:+75958085 MsaT010647.1:CDS
TTTAGACTGTGTGACTGGGA+TGG 0.645506 2:-75957949 None:intergenic
ATCTTCATCCAAGAGCAGAA+CGG 0.662274 2:-75958172 None:intergenic
CATGGAATCTGGGATTCAGG+TGG 0.681198 2:+75955827 MsaT010647.1:CDS
GAATTGAACCTTCCTCAAAG+AGG 0.691465 2:+75955223 MsaT010647.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 75955183 75958190 75955183 ID=MsaG010647
Chr2 mRNA 75955183 75958190 75955183 ID=MsaT010647.1;Parent=MsaG010647
Chr2 exon 75955183 75955244 75955183 ID=MsaT010647.1.exon1;Parent=MsaT010647.1
Chr2 CDS 75955183 75955244 75955183 ID=cds.MsaT010647.1;Parent=MsaT010647.1
Chr2 exon 75955522 75955594 75955522 ID=MsaT010647.1.exon2;Parent=MsaT010647.1
Chr2 CDS 75955522 75955594 75955522 ID=cds.MsaT010647.1;Parent=MsaT010647.1
Chr2 exon 75955693 75955856 75955693 ID=MsaT010647.1.exon3;Parent=MsaT010647.1
Chr2 CDS 75955693 75955856 75955693 ID=cds.MsaT010647.1;Parent=MsaT010647.1
Chr2 exon 75957284 75957293 75957284 ID=MsaT010647.1.exon4;Parent=MsaT010647.1
Chr2 CDS 75957284 75957293 75957284 ID=cds.MsaT010647.1;Parent=MsaT010647.1
Chr2 exon 75957921 75958190 75957921 ID=MsaT010647.1.exon5;Parent=MsaT010647.1
Chr2 CDS 75957921 75958190 75957921 ID=cds.MsaT010647.1;Parent=MsaT010647.1
Gene Sequence

>MsaT010647.1

ATGCATCGTCCATCAAAGCCAAACTCCTCATCGCTGAAAGGAATTGAACCTTCCTCAAAGAGGGTTTGCAAAGGAGAAAGTTCTTCCAACAATGGAAAACCTAAATTCTTCGAAACTGTGATTCATCCAGATCTGGATCGTATTGACTTGCCGATTGACTTTGTTCGTAAATGGTATATGGAGCTTAGAGCTAGTAACCTTGGATGGATTAAGCTCCCAAACGGAAATCTGTACTTGGCCAGAATGTATACTACTGGATTAAATCAGTACATGGAATCTGGGATTCAGGTGGCACTAAGGACAGAAGGAAATTTGCCAGCCAAAACTTGTGAGATTGCCATCCCAGTCACACAGTCTAAAATTAACCTTTACTTGGTGGGTAGTGGAGCAATCTATGAATGCACACTCAAAAATTCAAACAGAAGAATATATTCTCAAAATGAAAGGTATCTTACAGAAGGCTGGTATGAATTTGTTAGGGATAACAAGCTGAGGGTGGGAGACAAGTTACTGTTTTGTCTCAATAAACCAACTGATAAGCTGTTTGTGAGAATTGTTCGCCGTTCTGCTCTTGGATGA
Protein sequence

>MsaT010647.1

MHRPSKPNSSSLKGIEPSSKRVCKGESSSNNGKPKFFETVIHPDLDRIDLPIDFVRKWYMELRASNLGWIKLPNGNLYLARMYTTGLNQYMESGIQVALRTEGNLPAKTCEIAIPVTQSKINLYLVGSGAIYECTLKNSNRRIYSQNERYLTEGWYEFVRDNKLRVGDKLLFCLNKPTDKLFVRIVRRSALG*