AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027818

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027818 MtrunA17_Chr3g0098251 38.843 121 68 4 9 129 6 120 9.07e-20 82.4
MsaG027818 MtrunA17_Chr4g0063401 66.667 57 13 1 76 126 113 169 2.17e-19 82.4
MsaG027818 MtrunA17_Chr8g0360671 62.963 54 18 1 76 129 54 105 9.15e-18 76.3
MsaG027818 MtrunA17_Chr4g0063361 35.433 127 69 4 7 126 48 168 2.92e-13 65.9
MsaG027818 MtrunA17_Chr4g0063391 49.180 61 26 1 66 126 85 140 7.19e-13 64.3
MsaG027818 MtrunA17_Chr4g0063371 39.080 87 51 2 83 169 96 180 4.55e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 47 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAAGGAGTTTGAGAAGTT+TGG 0.274477 5:-52913608 None:intergenic
AACAGATCTTGTTCCCATTA+GGG 0.307940 5:+52913680 MsaT027818.1:CDS
ATGCTTGTATGCCGGATTAT+TGG 0.312159 5:+52915118 MsaT027818.1:CDS
CTTGTGAAATCTTGGTTTCA+TGG 0.317941 5:-52913578 None:intergenic
TAACAGATCTTGTTCCCATT+AGG 0.329042 5:+52913679 MsaT027818.1:CDS
CTCACCATTGTAATACTTCT+CGG 0.344652 5:-52914725 None:intergenic
GTTGGCTCTGAATGCTGATT+TGG 0.362367 5:+52914906 MsaT027818.1:CDS
GTCAGATGCTTGTGAAATCT+TGG 0.384268 5:-52913586 None:intergenic
ATGGCTTGAAACAACCCTAA+TGG 0.387771 5:-52913694 None:intergenic
ATAAGGCAGCCACCGTGAAT+TGG 0.397681 5:+52914614 MsaT027818.1:intron
TGGCTTGAAACAACCCTAAT+GGG 0.399086 5:-52913693 None:intergenic
CCAATACAACGGCTGCGAAA+AGG 0.408959 5:+52913736 MsaT027818.1:CDS
CAATACAACGGCTGCGAAAA+GGG 0.431504 5:+52913737 MsaT027818.1:CDS
AATGGTGAGGAATGTCCTTA+TGG 0.456697 5:+52914739 MsaT027818.1:CDS
CCCCTGCTTATAGGCAAAGT+TGG 0.457463 5:+52914888 MsaT027818.1:intron
AAACTACACTTGTCACCATA+AGG 0.480255 5:-52914754 None:intergenic
CCATTGTAGCCTATGGCTGC+TGG 0.486648 5:-52915055 None:intergenic
AAGCATGGAGTTGTGGCCTA+TGG 0.492762 5:-52915101 None:intergenic
AACTAGCTCCTTCCAATTCA+CGG 0.494125 5:-52914626 None:intergenic
ATAAAAGCCATTGTAGCCTA+TGG 0.511831 5:-52915062 None:intergenic
GCCATAGCGGCACCAAGGCG+TGG 0.513137 5:+52915021 MsaT027818.1:intron
GCCATGTTCCCACCAAGAAA+AGG 0.519256 5:+52913712 MsaT027818.1:CDS
GCACAAAATCCTCCACGCCT+TGG 0.521458 5:-52915033 None:intergenic
CAACGAGGAACGACTACAGC+TGG 0.537664 5:+52914657 MsaT027818.1:CDS
AGAGAGTTCATTACATGAGA+AGG 0.541237 5:-52913765 None:intergenic
ATCCAGTGTGTTTCTGCCAT+AGG 0.556468 5:+52915085 MsaT027818.1:CDS
ACGGAGGGTAGCCAATAATC+CGG 0.562607 5:-52915129 None:intergenic
ACAACTCCATGCTTGTATGC+CGG 0.564483 5:+52915110 MsaT027818.1:CDS
TCAGAGAATCATTCACAAGA+TGG 0.566966 5:+52914696 MsaT027818.1:CDS
GGCATACAAGCATGGAGTTG+TGG 0.574551 5:-52915108 None:intergenic
CCAGCAGCCATAGGCTACAA+TGG 0.578727 5:+52915055 MsaT027818.1:CDS
GGTGTAGGAAGTGACACAAA+AGG 0.592126 5:-52913624 None:intergenic
AATAATCCGGCATACAAGCA+TGG 0.596755 5:-52915116 None:intergenic
GGCAGCCACCGTGAATTGGA+AGG 0.607378 5:+52914618 MsaT027818.1:intron
GGCCTATGGCAGAAACACAC+TGG 0.609914 5:-52915087 None:intergenic
AGCAAAAGACGGATCATCAG+AGG 0.611904 5:+52913653 MsaT027818.1:CDS
AAGTGGAAGGCAGGTTACGG+AGG 0.624445 5:-52915145 None:intergenic
TGTAGTCGTTCCTCGTTGCG+AGG 0.631526 5:-52914652 None:intergenic
TTGCTGCCATAGCGGCACCA+AGG 0.631619 5:+52915016 MsaT027818.1:intron
AGTGGAAGGCAGGTTACGGA+GGG 0.631984 5:-52915144 None:intergenic
CGAGAAGTATTACAATGGTG+AGG 0.652954 5:+52914726 MsaT027818.1:CDS
ACACCATCCAAAGCAAAAGA+CGG 0.654937 5:+52913642 MsaT027818.1:CDS
CTCTCCGAGAAGTATTACAA+TGG 0.666265 5:+52914721 MsaT027818.1:CDS
ATAGCGGCACCAAGGCGTGG+AGG 0.667840 5:+52915024 MsaT027818.1:intron
CAAGAAAAGGACCAATACAA+CGG 0.699937 5:+52913725 MsaT027818.1:CDS
GCTAGTTAGTCCTCGCAACG+AGG 0.721526 5:+52914642 MsaT027818.1:CDS
TAGCTCCTTCCAATTCACGG+TGG 0.783407 5:-52914623 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 52913561 52915153 52913561 ID=MsaG027818
Chr5 mRNA 52913561 52915153 52913561 ID=MsaT027818.1;Parent=MsaG027818
Chr5 exon 52913561 52913773 52913561 ID=MsaT027818.1.exon1;Parent=MsaT027818.1
Chr5 CDS 52913561 52913773 52913561 ID=cds.MsaT027818.1;Parent=MsaT027818.1
Chr5 exon 52914619 52914786 52914619 ID=MsaT027818.1.exon2;Parent=MsaT027818.1
Chr5 CDS 52914619 52914786 52914619 ID=cds.MsaT027818.1;Parent=MsaT027818.1
Chr5 exon 52914901 52914927 52914901 ID=MsaT027818.1.exon3;Parent=MsaT027818.1
Chr5 CDS 52914901 52914927 52914901 ID=cds.MsaT027818.1;Parent=MsaT027818.1
Chr5 exon 52915028 52915153 52915028 ID=MsaT027818.1.exon4;Parent=MsaT027818.1
Chr5 CDS 52915028 52915153 52915028 ID=cds.MsaT027818.1;Parent=MsaT027818.1
Gene Sequence

>MsaT027818.1

ATGATTTTTGTGAAGGACCATGAAACCAAGATTTCACAAGCATCTGACCAAACTTCTCAAACTCCTTTTGTGTCACTTCCTACACCATCCAAAGCAAAAGACGGATCATCAGAGGCTGTAACAGATCTTGTTCCCATTAGGGTTGTTTCAAGCCATGTTCCCACCAAGAAAAGGACCAATACAACGGCTGCGAAAAGGGCTAAGCCTTCTCATGCAGCCACCGTGAATTGGAAGGAGCTAGTTAGTCCTCGCAACGAGGAACGACTACAGCTGGTGAGTTCAAATGAAGATCAGAGAATCATTCACAAGATGGTGCTCTCCGAGAAGTATTACAATGGTGAGGAATGTCCTTATGGTGACAAGTGTAGTTTTCTTCATAGGGCAAAGTTGGCTCTGAATGCTGATTTGCGGCACCAAGGCGTGGAGGATTTTGTGCCAGCAGCCATAGGCTACAATGGCTTTTATATCCAGTGTGTTTCTGCCATAGGCCACAACTCCATGCTTGTATGCCGGATTATTGGCTACCCTCCGTAA
Protein sequence

>MsaT027818.1

MIFVKDHETKISQASDQTSQTPFVSLPTPSKAKDGSSEAVTDLVPIRVVSSHVPTKKRTNTTAAKRAKPSHAATVNWKELVSPRNEERLQLVSSNEDQRIIHKMVLSEKYYNGEECPYGDKCSFLHRAKLALNADLRHQGVEDFVPAAIGYNGFYIQCVSAIGHNSMLVCRIIGYPP*