AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014072


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014072 MtrunA17_Chr3g0101151 95.849 265 9 1 5 269 20 282 0.0 528
MsaG014072 MtrunA17_Chr5g0445571 55.017 289 102 9 5 269 20 304 2.65e-88 273
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014072 AT2G05160.3 40.433 277 140 10 5 269 20 283 1.02e-53 182
MsaG014072 AT2G05160.2 40.433 277 140 10 5 269 20 283 1.72e-53 182
MsaG014072 AT2G05160.1 40.433 277 140 10 5 269 20 283 1.72e-53 182
MsaG014072 AT3G52980.1 38.790 281 127 7 5 269 20 271 3.96e-53 178
MsaG014072 AT3G51950.1 31.034 174 90 7 5 169 20 172 1.22e-12 68.6
MsaG014072 AT3G51950.3 31.034 174 90 7 5 169 20 172 1.22e-12 68.6
MsaG014072 AT3G51950.2 31.034 174 90 7 5 169 20 172 1.22e-12 68.6
MsaG014072 AT3G51950.4 31.034 174 90 7 5 169 20 172 1.22e-12 68.6

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTGCCGGCGAAGAATTTC+CGG 0.247410 3:+66474314 None:intergenic
TGCTAAATTAGCTTCGTTTC+CGG 0.258908 3:-66474412 MsaT014072.1:CDS
ACCGATCTTTCCATTCAAAT+TGG 0.268570 3:+66474095 None:intergenic
ACCATGGTGCAGATTGTAAT+AGG 0.310628 3:+66474275 None:intergenic
TGAATGGAAAGATCGGTAAA+AGG 0.328229 3:-66474089 MsaT014072.1:CDS
GATCCGTGAAGTTGCTCTTA+AGG 0.329026 3:-66474382 MsaT014072.1:CDS
GGAAGTGAAGCAATTGAAAT+AGG 0.332608 3:+66473838 None:intergenic
GTGGCTATTGTCATAAATTC+TGG 0.348351 3:+66474243 None:intergenic
ATATTATGATAAGTATAAAA+AGG 0.370707 3:-66473809 MsaT014072.1:CDS
TATCTCCTTATGCAAGATAA+TGG 0.384134 3:-66474447 MsaT014072.1:CDS
AGCCAACGACATGGCAAGTC+TGG 0.385583 3:-66473757 MsaT014072.1:CDS
TCAGATTGCGAAATAGTATT+CGG 0.396464 3:-66473711 MsaT014072.1:CDS
ATTTCAGCAAAGGATATTGC+AGG 0.419277 3:-66474026 MsaT014072.1:CDS
GCTCACCATTATCTTGCATA+AGG 0.423571 3:+66474442 None:intergenic
ACGTCTTATTTATAGGAGTC+GGG 0.440363 3:-66473464 MsaT014072.1:intron
GCAGGCATGGAAATAGTTGT+AGG 0.444946 3:-66474008 MsaT014072.1:CDS
TCTAGTTGCGCCAGTGATCC+AGG 0.446312 3:+66473898 None:intergenic
GAACATGCTACAAAGATCAT+TGG 0.447477 3:-66474471 MsaT014072.1:CDS
GAGTGAACCTGAAAACTTGC+CGG 0.457349 3:+66474300 None:intergenic
CCATGGTGCAGATTGTAATA+GGG 0.471354 3:+66474276 None:intergenic
CCGAGCATTGCTCCTGATGA+AGG 0.476389 3:-66473433 MsaT014072.1:CDS
CAAAACTGAGCTTCAAAAGA+TGG 0.480853 3:-66474358 MsaT014072.1:CDS
CTTTCCATTCAAATTGGCTA+CGG 0.487691 3:+66474101 None:intergenic
TCAGCCGTAGCCAATTTGAA+TGG 0.493639 3:-66474105 MsaT014072.1:CDS
TGGCCTTAAGAGCAACTTCA+CGG 0.499569 3:+66474379 None:intergenic
CAAACCCGTACTGCATTGTT+CGG 0.501392 3:-66474210 MsaT014072.1:CDS
CCTTCATCAGGAGCAATGCT+CGG 0.506415 3:+66473433 None:intergenic
TTCAATTGCTTCACTTCCGA+TGG 0.509865 3:-66473833 MsaT014072.1:CDS
AGCAAAGGATATTGCAGGCA+TGG 0.511519 3:-66474021 MsaT014072.1:CDS
AGTGCCCTCTGTTGAAATTG+AGG 0.512111 3:-66473386 MsaT014072.1:CDS
GTGCCCTCTGTTGAAATTGA+GGG 0.514755 3:-66473385 MsaT014072.1:CDS
CCGTACTGCATTGTTCGGTT+CGG 0.518157 3:-66474205 MsaT014072.1:CDS
CATGTCGTTGGCTCTCAGCT+AGG 0.521057 3:+66473767 None:intergenic
ACGAGATCGGTAATCTCGTC+CGG 0.522226 3:-66474333 MsaT014072.1:CDS
ACTTCACGGATCAAATTATC+CGG 0.524032 3:+66474393 None:intergenic
GCCAATTTGAATGGAAAGAT+CGG 0.526237 3:-66474096 MsaT014072.1:CDS
ATAGTATTCGGCTAATTGAC+AGG 0.528711 3:-66473699 MsaT014072.1:intron
AGTTGTAGGTTCTATCATCA+TGG 0.533176 3:-66473994 MsaT014072.1:CDS
AGCCAGACTTGCCATGTCGT+TGG 0.545723 3:+66473755 None:intergenic
TCAAAAGATGGCTACGAGAT+CGG 0.546328 3:-66474346 MsaT014072.1:CDS
TACTTATCATAATATGCCAT+CGG 0.546607 3:+66473817 None:intergenic
CGAACCGAACAATGCAGTAC+GGG 0.548958 3:+66474206 None:intergenic
GACATAGTCTCTCATATGTA+CGG 0.551552 3:-66473958 MsaT014072.1:CDS
CTGATGAAGGAAAAGAGCAT+TGG 0.553316 3:-66473420 MsaT014072.1:CDS
TATCCCTCAATTTCAACAGA+GGG 0.557312 3:+66473382 None:intergenic
ATCACTGGCGCAACTAGAGT+CGG 0.573776 3:-66473893 MsaT014072.1:CDS
TAGGTTCTATCATCATGGAC+AGG 0.574235 3:-66473989 MsaT014072.1:CDS
CTCGTCCGGAAATTCTTCGC+CGG 0.593097 3:-66474319 MsaT014072.1:CDS
ACATGTCACTATTTCAGCAA+AGG 0.593665 3:-66474036 MsaT014072.1:CDS
CCGAACCGAACAATGCAGTA+CGG 0.598627 3:+66474205 None:intergenic
TTATCCCTCAATTTCAACAG+AGG 0.629437 3:+66473381 None:intergenic
CCCTATTACAATCTGCACCA+TGG 0.636560 3:-66474276 MsaT014072.1:CDS
ACGGGTTTGATGTTCAGTGG+TGG 0.642127 3:+66474224 None:intergenic
CTAGCTGAGAGCCAACGACA+TGG 0.659391 3:-66473766 MsaT014072.1:CDS
AGTACGGGTTTGATGTTCAG+TGG 0.670698 3:+66474221 None:intergenic
ATTCTGGACTAGTATTACCA+TGG 0.683922 3:+66474259 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 66473381 66474505 66473381 ID=MsaG014072
Chr3 mRNA 66473381 66474505 66473381 ID=MsaT014072.1;Parent=MsaG014072
Chr3 exon 66473381 66473471 66473381 ID=MsaT014072.1.exon2;Parent=MsaT014072.1
Chr3 CDS 66473381 66473471 66473381 ID=cds.MsaT014072.1;Parent=MsaT014072.1
Chr3 exon 66473700 66474505 66473700 ID=MsaT014072.1.exon1;Parent=MsaT014072.1
Chr3 CDS 66473700 66474505 66473700 ID=cds.MsaT014072.1;Parent=MsaT014072.1
Gene Sequence

>MsaT014072.1

ATGGATTTTTCTGAACATGCTACAAAGATCATTGGATATCTCCTTATGCAAGATAATGGTGAGCAAGAGATTGCTAAATTAGCTTCGTTTCCGGATAATTTGATCCGTGAAGTTGCTCTTAAGGCCAAAACTGAGCTTCAAAAGATGGCTACGAGATCGGTAATCTCGTCCGGAAATTCTTCGCCGGCAAGTTTTCAGGTTCACTCTCCCTATTACAATCTGCACCATGGTAATACTAGTCCAGAATTTATGACAATAGCCACCACTGAACATCAAACCCGTACTGCATTGTTCGGTTCGGAGAATCATCATCATGTAGATAGTGTAAATTCTACAACTGATAACTATGATTGCTATAATTACTACTTAGAATATGCTTCAGCCGTAGCCAATTTGAATGGAAAGATCGGTAAAAGGTTTTCGAACATGACTGAATTTCCATTCAAAACATGTCACTATTTCAGCAAAGGATATTGCAGGCATGGAAATAGTTGTAGGTTCTATCATCATGGACAGGCTGTTTCTGACATAGTCTCTCATATGTACGGAAGCGATGCTTCTGCTAACGACGAACAAACGATTTTGCCTGGATCACTGGCGCAACTAGAGTCGGAAATTGTTGAGCTTTTAAAACAAAGAGGAAATCCTATTTCAATTGCTTCACTTCCGATGGCATATTATGATAAGTATAAAAAGGTGTTACAAGCAGAAGGTTACCTAGCTGAGAGCCAACGACATGGCAAGTCTGGCTACAATTTGACAAAGCTTCTTATCAGATTGCGAAATAGTATTCGGCTAATTGACAGGAGTCGGGAATTTAAACCGAGCATTGCTCCTGATGAAGGAAAAGAGCATTGGATCTTCAAGCAAGTGCCCTCTGTTGAAATTGAGGGATAA

Protein sequence

>MsaT014072.1

MDFSEHATKIIGYLLMQDNGEQEIAKLASFPDNLIREVALKAKTELQKMATRSVISSGNSSPASFQVHSPYYNLHHGNTSPEFMTIATTEHQTRTALFGSENHHHVDSVNSTTDNYDCYNYYLEYASAVANLNGKIGKRFSNMTEFPFKTCHYFSKGYCRHGNSCRFYHHGQAVSDIVSHMYGSDASANDEQTILPGSLAQLESEIVELLKQRGNPISIASLPMAYYDKYKKVLQAEGYLAESQRHGKSGYNLTKLLIRLRNSIRLIDRSREFKPSIAPDEGKEHWIFKQVPSVEIEG*