AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010546

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010546 MtrunA17_Chr4g0040201 59.794 194 48 6 9 172 8 201 5.04e-66 201
MsaG010546 MtrunA17_Chr2g0324511 69.325 163 18 3 1 131 1 163 5.45e-66 200
MsaG010546 MtrunA17_Chr2g0324521 67.826 115 9 3 45 131 2 116 3.04e-39 130
MsaG010546 MtrunA17_Chr2g0324571 61.538 117 15 2 45 131 2 118 3.92e-38 127
MsaG010546 MtrunA17_Chr2g0324531 74.576 59 15 0 130 188 2 60 2.47e-25 93.2
MsaG010546 MtrunA17_Chr2g0282341 32.836 134 56 4 48 151 4 133 4.77e-14 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010546 AT4G20970.1 35.359 181 75 6 12 153 11 188 8.56e-22 88.2

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGCAAACTTTGTTACAATT+TGG 0.160686 2:+74610555 MsaT010546.1:CDS
TATCTCTTCAAATTCTTCTT+TGG 0.234992 2:+74609820 MsaT010546.1:CDS
CAATTGTGGGATCTTGAAAT+TGG 0.244456 2:+74610648 MsaT010546.1:CDS
AACAAGAAAGAAAGTTTAAA+AGG 0.273993 2:+74609667 MsaT010546.1:CDS
AGAGAAGAAAGAAAGTTTAA+TGG 0.275748 2:+74609642 MsaT010546.1:CDS
GAGAGTTGAGTTTGGAATAG+AGG 0.319433 2:-74608359 None:intergenic
AGAGTTTGTGAACGGATCTA+TGG 0.326191 2:+74610605 MsaT010546.1:CDS
TCTTCCTAGCTATAATTCTA+AGG 0.332366 2:+74608383 MsaT010546.1:CDS
AGGAAGAAGAGAGTTGAGTT+TGG 0.335218 2:-74608367 None:intergenic
GAGAAGAAAGAAAGTTTAAT+GGG 0.355968 2:+74609643 MsaT010546.1:CDS
CCAACTTTAGATTTGTCTCT+AGG 0.356186 2:-74609615 None:intergenic
TCTTCAAATTCTTCTTTGGC+TGG 0.403407 2:+74609824 MsaT010546.1:CDS
AACAACCTTTCTTTCGACTT+TGG 0.406325 2:-74608307 None:intergenic
CTTTCGACTTTGGTTGAAGA+AGG 0.411324 2:-74608297 None:intergenic
ATAGCCTCATCTACTTGATC+AGG 0.429867 2:-74609577 None:intergenic
TTGAAATTGGATCTGAGAGT+TGG 0.440265 2:+74610661 MsaT010546.1:CDS
CCAAATTGTAACAAAGTTTG+CGG 0.448789 2:-74610555 None:intergenic
TTCAACCAAAGTCGAAAGAA+AGG 0.454979 2:+74608302 MsaT010546.1:CDS
AAAATAGAGATTCATGAAAT+GGG 0.456591 2:+74609706 MsaT010546.1:CDS
TGAAATTGGATCTGAGAGTT+GGG 0.479805 2:+74610662 MsaT010546.1:CDS
ATTAAGGATTTGTAAACTCA+TGG 0.479982 2:-74610707 None:intergenic
CCTAGAGACAAATCTAAAGT+TGG 0.498284 2:+74609615 MsaT010546.1:CDS
ATTTCAAGATCCCACAATTG+AGG 0.509351 2:-74610645 None:intergenic
TCTTCATACCGTACATGCTC+AGG 0.517547 2:+74609856 MsaT010546.1:CDS
TCATCTACTTGATCAGGTAA+TGG 0.522136 2:-74609571 None:intergenic
TGGAACATAATCAACAAGAA+TGG 0.524412 2:+74608271 MsaT010546.1:CDS
GAGTTTGTGAACGGATCTAT+GGG 0.526348 2:+74610606 MsaT010546.1:CDS
TATATATACCTGAGCATGTA+CGG 0.538419 2:-74609864 None:intergenic
GGAAACACAGCCTCAATTGT+GGG 0.559018 2:+74610635 MsaT010546.1:CDS
TGGAAACACAGCCTCAATTG+TGG 0.568137 2:+74610634 MsaT010546.1:CDS
TTCACCTTAGAATTATAGCT+AGG 0.582785 2:-74608387 None:intergenic
GAGCAATCAAAATAAGTGAG+AGG 0.593941 2:+74610577 MsaT010546.1:CDS
TGTTACAATCACTTGTAGAG+TGG 0.604182 2:-74609731 None:intergenic
GTTACAATCACTTGTAGAGT+GGG 0.605139 2:-74609730 None:intergenic
AGGTTGAAAGAGTTTGTGAA+CGG 0.618184 2:+74610597 MsaT010546.1:CDS
ATTACCTGATCAAGTAGATG+AGG 0.636526 2:+74609573 MsaT010546.1:CDS
GAACGGATCTATGGGCGATG+TGG 0.672622 2:+74610614 MsaT010546.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 74608270 74610728 74608270 ID=MsaG010546
Chr2 mRNA 74608270 74610728 74608270 ID=MsaT010546.1;Parent=MsaG010546
Chr2 exon 74608270 74608404 74608270 ID=MsaT010546.1.exon1;Parent=MsaT010546.1
Chr2 CDS 74608270 74608404 74608270 ID=cds.MsaT010546.1;Parent=MsaT010546.1
Chr2 exon 74609559 74609754 74609559 ID=MsaT010546.1.exon2;Parent=MsaT010546.1
Chr2 CDS 74609559 74609754 74609559 ID=cds.MsaT010546.1;Parent=MsaT010546.1
Chr2 exon 74609819 74609877 74609819 ID=MsaT010546.1.exon3;Parent=MsaT010546.1
Chr2 CDS 74609819 74609877 74609819 ID=cds.MsaT010546.1;Parent=MsaT010546.1
Chr2 exon 74610552 74610728 74610552 ID=MsaT010546.1.exon4;Parent=MsaT010546.1
Chr2 CDS 74610552 74610728 74610552 ID=cds.MsaT010546.1;Parent=MsaT010546.1
Gene Sequence

>MsaT010546.1

ATGGAACATAATCAACAAGAATGGCAACCTTCTTCAACCAAAGTCGAAAGAAAGGTTGTTGAGAAAAATAGGAGAAATCAGATGAAGATCCTCTATTCCAAACTCAACTCTCTTCTTCCTAGCTATAATTCTAAGGAATTAACGTTACCATTACCTGATCAAGTAGATGAGGCTATAAACTACATAAAGAGCCTAGAGACAAATCTAAAGTTGGCAAAAGAGAAGAAAGAAAGTTTAATGGGAAACAAGAAAGAAAGTTTAAAAGGAAGCATAAAGTTGCCAAAAATAGAGATTCATGAAATGGGACCCACTCTACAAGTGATTGTAACATTTATCTCTTCAAATTCTTCTTTGGCTGGTGATTCACTTCTTCATACCGTACATGCTCAGATTCCGCAAACTTTGTTACAATTTGGAGCAATCAAAATAAGTGAGAGGTTGAAAGAGTTTGTGAACGGATCTATGGGCGATGTGGAAACACAGCCTCAATTGTGGGATCTTGAAATTGGATCTGAGAGTTGGGAGCTTCTACATTACTGTAGTAACCATGAGTTTACAAATCCTTAA
Protein sequence

>MsaT010546.1

MEHNQQEWQPSSTKVERKVVEKNRRNQMKILYSKLNSLLPSYNSKELTLPLPDQVDEAINYIKSLETNLKLAKEKKESLMGNKKESLKGSIKLPKIEIHEMGPTLQVIVTFISSNSSLAGDSLLHTVHAQIPQTLLQFGAIKISERLKEFVNGSMGDVETQPQLWDLEIGSESWELLHYCSNHEFTNP*