AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025930

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025930 MtrunA17_Chr5g0406901 94.551 312 16 1 1 312 20 330 0.0 602
MsaG025930 MtrunA17_Chr3g0092141 37.037 135 77 2 162 295 38 165 1.42e-23 95.5
MsaG025930 MtrunA17_Chr4g0060761 39.062 128 74 1 173 300 146 269 3.99e-23 96.3
MsaG025930 MtrunA17_Chr3g0127001 38.400 125 59 2 171 295 148 254 6.72e-21 90.1
MsaG025930 MtrunA17_Chr1g0182631 38.346 133 62 3 163 295 115 227 9.11e-21 89.0
MsaG025930 MtrunA17_Chr3g0136081 48.276 87 40 2 180 264 414 497 1.45e-13 70.9
MsaG025930 MtrunA17_Chr3g0143921 45.122 82 41 2 158 237 570 649 9.45e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025930 AT4G35590.2 50.485 309 125 8 1 294 9 304 2.31e-87 265
MsaG025930 AT4G35590.1 51.133 309 123 9 1 294 59 354 1.36e-86 265
MsaG025930 AT1G74480.1 46.087 115 57 2 180 292 131 242 7.73e-24 99.4
MsaG025930 AT1G18790.1 44.628 121 61 3 175 293 120 236 8.36e-24 98.6
MsaG025930 AT5G66990.1 42.727 110 59 2 187 295 164 270 1.90e-21 92.4
MsaG025930 AT5G53040.1 42.609 115 53 1 181 295 147 248 3.71e-21 90.9
MsaG025930 AT5G16100.2 50.000 64 32 0 174 237 346 409 1.49e-13 71.2

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGATTACTTTATCAGATT+TGG 0.267461 5:+14487388 MsaT025930.1:CDS
AAAAGGAAGTGCAGAGAATT+TGG 0.277802 5:+14487476 MsaT025930.1:CDS
TGAAAGCTACTCCAATTCTT+AGG 0.296460 5:+14485462 MsaT025930.1:CDS
AGAAGACGAGGCTGAGTTAC+TGG 0.328138 5:+14487045 MsaT025930.1:CDS
CAGTCTCATTCATGATCTTC+AGG 0.329225 5:+14487538 MsaT025930.1:CDS
TTCTTTGACGCTTCTGCAAT+TGG 0.345585 5:-14487428 None:intergenic
TTTGGAATGGCCTGAAGCTT+TGG 0.353863 5:-14486854 None:intergenic
TTTCAGGAATCCAAAGCTTC+AGG 0.357774 5:+14486844 MsaT025930.1:intron
GAGCTCTGCAAGGGAAGAAT+TGG 0.370187 5:+14486943 MsaT025930.1:CDS
ATACCTTGTAACCAACAAAA+AGG 0.370413 5:-14485597 None:intergenic
ATGCAGCCATGGCAGTTATA+AGG 0.372450 5:+14487821 MsaT025930.1:CDS
GATTTCAACAACCTAAGAAT+TGG 0.374799 5:-14485473 None:intergenic
GTATTCCTCGCTGGCCTCAT+AGG 0.379146 5:+14487498 MsaT025930.1:CDS
AAGGGTATAAGAATGGAGTT+TGG 0.381031 5:+14485519 MsaT025930.1:CDS
TGATGCTAATTGCTAGGTTT+AGG 0.384292 5:-14487997 None:intergenic
AGTCTTGCCTGTGCTTAATC+AGG 0.387896 5:+14487000 MsaT025930.1:CDS
TCTTCCCTTGCAGAGCTCTC+TGG 0.396713 5:-14486938 None:intergenic
TGGAGATCATTAAGCAGGTT+TGG 0.397862 5:-14486872 None:intergenic
CATAGAGAAGAGGCCCTTCA+TGG 0.404040 5:+14487876 MsaT025930.1:CDS
TTTCTCCTCCATCACATTCA+CGG 0.441238 5:-14485388 None:intergenic
AAATTGAGACCAAGAGATTC+AGG 0.445679 5:+14487905 MsaT025930.1:CDS
CGTCAAAGAATCTAAATGTT+GGG 0.449206 5:+14487441 MsaT025930.1:CDS
AAAGATGTTGGAAAGTGAAA+AGG 0.459498 5:+14487849 MsaT025930.1:CDS
TTGGGCTTACTGTTCTCAAA+AGG 0.466425 5:+14487459 MsaT025930.1:CDS
TTGCCTCCTTATAACTGCCA+TGG 0.470587 5:-14487827 None:intergenic
TCAGCCTCGTCTTCTTCATA+AGG 0.476498 5:-14487037 None:intergenic
AACATCTTGCCTGAATCTCT+TGG 0.476779 5:-14487914 None:intergenic
CTCAATTTGTATGTCCATGA+AGG 0.479972 5:-14487890 None:intergenic
GAGAATTTGGTATTCCTCGC+TGG 0.487057 5:+14487489 MsaT025930.1:CDS
GCAGGAAGAGGCAAAACATC+AGG 0.497528 5:+14487783 MsaT025930.1:intron
ATCATTAAGCAGGTTTGGAA+TGG 0.506660 5:-14486867 None:intergenic
AATTGGCATATCAAAGTACT+TGG 0.507062 5:-14487411 None:intergenic
TGAATGTGATGGAGGAGAAA+AGG 0.512445 5:+14485391 MsaT025930.1:CDS
TATAAGGAGGCAAAAGATGT+TGG 0.519493 5:+14487837 MsaT025930.1:CDS
AATCTTTGCAACATGGTCAC+TGG 0.527182 5:-14487372 None:intergenic
TTGGAATGTGAGAAAATTGA+GGG 0.529395 5:-14485574 None:intergenic
ATACAAGTTGGAACCGAAGA+AGG 0.529415 5:+14486901 MsaT025930.1:CDS
TCACGTGGAGATCATTAAGC+AGG 0.532780 5:-14486877 None:intergenic
ATCAGATGATGCTAATTGCT+AGG 0.533299 5:-14488003 None:intergenic
AGAGGCAAAACATCAGGAAA+GGG 0.535237 5:+14487789 MsaT025930.1:CDS
GCGTCAAAGAATCTAAATGT+TGG 0.551834 5:+14487440 MsaT025930.1:CDS
GTTGGAATGTGAGAAAATTG+AGG 0.552092 5:-14485575 None:intergenic
TCTCCACGTGATATACAAGT+TGG 0.555482 5:+14486889 MsaT025930.1:CDS
AAGAGGCAAAACATCAGGAA+AGG 0.561722 5:+14487788 MsaT025930.1:CDS
TTGAGATCCTGATTAAGCAC+AGG 0.580889 5:-14487007 None:intergenic
AAAAGGAAAACATAGAGAAG+AGG 0.595516 5:+14487866 MsaT025930.1:CDS
GGAGGATAAAGATGCAGCCA+TGG 0.600209 5:+14487810 MsaT025930.1:CDS
AGTGATTTGATCTTCCTATG+AGG 0.604696 5:-14487512 None:intergenic
TCAATTTGTATGTCCATGAA+GGG 0.616363 5:-14487889 None:intergenic
GGCAAAACATCAGGAAAGGG+AGG 0.624378 5:+14487792 MsaT025930.1:CDS
TACACCAGAGAGCTCTGCAA+GGG 0.628005 5:+14486934 MsaT025930.1:CDS
CATGTGTACCGTGAATGTGA+TGG 0.635852 5:+14485380 MsaT025930.1:CDS
ATACACCAGAGAGCTCTGCA+AGG 0.645197 5:+14486933 MsaT025930.1:CDS
CAGCCATGGCAGTTATAAGG+AGG 0.646911 5:+14487824 MsaT025930.1:CDS
TCTTCCTTATGAAGAAGACG+AGG 0.662936 5:+14487033 MsaT025930.1:CDS
ATAAAGTAATCTTTGCAACA+TGG 0.664575 5:-14487379 None:intergenic
ATCTTCCTATGAGGCCAGCG+AGG 0.669880 5:-14487503 None:intergenic
GTTCCAACTTGTATATCACG+TGG 0.670645 5:-14486892 None:intergenic
TCTGCAAGGGAAGAATTGGA+AGG 0.677605 5:+14486947 MsaT025930.1:CDS
GTGTACCGTGAATGTGATGG+AGG 0.689782 5:+14485383 MsaT025930.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 14485368 14488014 14485368 ID=MsaG025930
Chr5 mRNA 14485368 14488014 14485368 ID=MsaT025930.1;Parent=MsaG025930
Chr5 exon 14485368 14485615 14485368 ID=MsaT025930.1.exon1;Parent=MsaT025930.1
Chr5 CDS 14485368 14485615 14485368 ID=cds.MsaT025930.1;Parent=MsaT025930.1
Chr5 exon 14486850 14487097 14486850 ID=MsaT025930.1.exon2;Parent=MsaT025930.1
Chr5 CDS 14486850 14487097 14486850 ID=cds.MsaT025930.1;Parent=MsaT025930.1
Chr5 exon 14487345 14487559 14487345 ID=MsaT025930.1.exon3;Parent=MsaT025930.1
Chr5 CDS 14487345 14487559 14487345 ID=cds.MsaT025930.1;Parent=MsaT025930.1
Chr5 exon 14487787 14488014 14487787 ID=MsaT025930.1.exon4;Parent=MsaT025930.1
Chr5 CDS 14487787 14488014 14487787 ID=cds.MsaT025930.1;Parent=MsaT025930.1
Gene Sequence

>MsaT025930.1

ATGAGAAGCGTGCATGTGTACCGTGAATGTGATGGAGGAGAAAAGGAAGTTGAAAGAGAGTTTGTGTTTTCTGAGAATGGTTCTTATGTTGAAATGAAAGCTACTCCAATTCTTAGGTTGTTGAAATCTTTTGTTTCTGAAGAGATTTTTGAAGGGTATAAGAATGGAGTTTGGCTTTGTGTTTTTGCTTTTCATGCTTGTAATGTCCCTCAATTTTCTCACATTCCAACCTTTTTGTTGGTTACAAGGAATCCAAAGCTTCAGGCCATTCCAAACCTGCTTAATGATCTCCACGTGATATACAAGTTGGAACCGAAGAAGGAACGAAAAGATACACCAGAGAGCTCTGCAAGGGAAGAATTGGAAGGAAACAACAATGATTTCCAACCACTAAAAAAAGTCTTGCCTGTGCTTAATCAGGATCTCAATTTTCTTCCTTATGAAGAAGACGAGGCTGAGTTACTGGATGATGAGACAAATTTTGAAAGTTCAGCAGGTTTTTTAGGAAAGAAAAAGAGGGCAGCCAGTGACCATGTTGCAAAGATTACTTTATCAGATTTGGCCAAGTACTTTGATATGCCAATTGCAGAAGCGTCAAAGAATCTAAATGTTGGGCTTACTGTTCTCAAAAGGAAGTGCAGAGAATTTGGTATTCCTCGCTGGCCTCATAGGAAGATCAAATCACTCGACAGTCTCATTCATGATCTTCAGGAAGAGGCAAAACATCAGGAAAGGGAGGATAAAGATGCAGCCATGGCAGTTATAAGGAGGCAAAAGATGTTGGAAAGTGAAAAGGAAAACATAGAGAAGAGGCCCTTCATGGACATACAAATTGAGACCAAGAGATTCAGGCAAGATGTTTTCAAGAGAAGGCACAGAGCCAGAGTTATTGAAAAACAGAATTTTCTACGGTTGGAAGCACCTAAACCTAGCAATTAG
Protein sequence

>MsaT025930.1

MRSVHVYRECDGGEKEVEREFVFSENGSYVEMKATPILRLLKSFVSEEIFEGYKNGVWLCVFAFHACNVPQFSHIPTFLLVTRNPKLQAIPNLLNDLHVIYKLEPKKERKDTPESSAREELEGNNNDFQPLKKVLPVLNQDLNFLPYEEDEAELLDDETNFESSAGFLGKKKRAASDHVAKITLSDLAKYFDMPIAEASKNLNVGLTVLKRKCREFGIPRWPHRKIKSLDSLIHDLQEEAKHQEREDKDAAMAVIRRQKMLESEKENIEKRPFMDIQIETKRFRQDVFKRRHRARVIEKQNFLRLEAPKPSN*