AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004876

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004876 MtrunA17_Chr1g0163221 25.763 295 165 11 12 284 11 273 1.70e-17 81.6
MsaG004876 MtrunA17_Chr3g0131891 26.224 286 178 11 12 283 19 285 9.56e-17 79.3
MsaG004876 MtrunA17_Chr1g0208771 27.636 275 166 10 30 286 16 275 5.51e-16 77.8
MsaG004876 MtrunA17_Chr7g0233561 25.532 282 188 11 15 283 22 294 1.27e-12 67.0
MsaG004876 MtrunA17_Chr1g0163071 25.564 266 165 8 41 284 16 270 1.36e-12 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTTGAGTAGTAAATTT+TGG 0.102919 1:+75005506 MsaT004876.1:CDS
AACAGGAGAGTGCTATGTTT+TGG 0.285292 1:+75007460 MsaT004876.1:CDS
TGATAAAACCACATGGCTAT+TGG 0.295086 1:+75005564 MsaT004876.1:CDS
TTGTTGAGGCGAAGAGATTT+TGG 0.299523 1:+75007484 MsaT004876.1:CDS
AGCCTTCTTGCTGAGATATC+TGG 0.323467 1:+75005880 MsaT004876.1:CDS
TCAGGAAGCTGAAGACATAT+AGG 0.408366 1:-75005544 None:intergenic
AGAAGGCTGCGATAGCGTTT+AGG 0.433134 1:-75005865 None:intergenic
AAATTTGAGTACAATTACTT+TGG 0.437036 1:-75007910 None:intergenic
CAGGAAGCTGAAGACATATA+GGG 0.442300 1:-75005543 None:intergenic
GTTGTGACTGCGGCAAGCCT+TGG 0.444590 1:-75007158 None:intergenic
AGCGTTTAGGCTCCTCTTGT+TGG 0.449128 1:-75005852 None:intergenic
AAACCACATGGCTATTGGAT+TGG 0.454515 1:+75005569 MsaT004876.1:CDS
CTTAACAACACGTCAACAAC+AGG 0.469084 1:+75007443 MsaT004876.1:CDS
AAATATGCTGATGGGATATG+AGG 0.485987 1:-75005695 None:intergenic
TTTAGGCTCCTCTTGTTGGT+TGG 0.495993 1:-75005848 None:intergenic
TGAATGTAGCACTGGAGCAT+TGG 0.496562 1:+75007129 MsaT004876.1:CDS
TTAAAGCTTAACTCTTGCAA+TGG 0.504842 1:+75007516 MsaT004876.1:CDS
CATTTCTTTGAATGTGTGAT+GGG 0.511289 1:-75007204 None:intergenic
ACGGGCATTGTCATTTGAGA+TGG 0.514098 1:-75005910 None:intergenic
GGATAGGTTAAATATGCTGA+TGG 0.514655 1:-75005704 None:intergenic
GGAAAACAAGGAGGATAGCA+TGG 0.518866 1:-75005761 None:intergenic
TCATCAAATCGTCGTTTCGA+AGG 0.518996 1:-75005480 None:intergenic
ACACATTCAAAGAAATGTGC+TGG 0.535216 1:+75007210 MsaT004876.1:CDS
GGTTTCCCATGGGGAAAACA+AGG 0.540143 1:-75005773 None:intergenic
CTCATGTGTTATTAAACAAG+TGG 0.542298 1:+75005608 MsaT004876.1:CDS
ACATTTCTTTGAATGTGTGA+TGG 0.547251 1:-75007205 None:intergenic
GAAGCTATTGAATGTAGCAC+TGG 0.555894 1:+75007121 MsaT004876.1:intron
AGATGATAATAAGAAACTGC+AGG 0.560494 1:-75005808 None:intergenic
GAAGAAAACCAACCAACAAG+AGG 0.567197 1:+75005840 MsaT004876.1:CDS
GATAGGTTAAATATGCTGAT+GGG 0.588873 1:-75005703 None:intergenic
TGTGTTATTAAACAAGTGGA+AGG 0.590126 1:+75005612 MsaT004876.1:CDS
GAAAACAAGGAGGATAGCAT+GGG 0.593037 1:-75005760 None:intergenic
GAGTACAATTACTTTGGACG+AGG 0.596826 1:-75007904 None:intergenic
ACGGACAATAAATTGAAACT+AGG 0.597678 1:+75007576 MsaT004876.1:CDS
GTCCAGATATCTCAGCAAGA+AGG 0.611666 1:-75005882 None:intergenic
TGGAGCATTGGAGAGAGCCA+AGG 0.647399 1:+75007141 MsaT004876.1:CDS
CGTGTTGTTAAGAAGTTGCG+CGG 0.667200 1:-75007432 None:intergenic
TGAAAGATTTGTTGTGACTG+CGG 0.679005 1:-75007168 None:intergenic
TTTCCAATCCAATAGCCATG+TGG 0.687940 1:-75005572 None:intergenic
AGCTTCCTGATAAAACCACA+TGG 0.693997 1:+75005557 MsaT004876.1:CDS
TTCCCATGGGGAAAACAAGG+AGG 0.706970 1:-75005770 None:intergenic
AAAACAAGGAGGATAGCATG+GGG 0.772194 1:-75005759 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 75005421 75007918 75005421 ID=MsaG004876
Chr1 mRNA 75005421 75007918 75005421 ID=MsaT004876.1;Parent=MsaG004876
Chr1 exon 75005421 75005973 75005421 ID=MsaT004876.1.exon1;Parent=MsaT004876.1
Chr1 CDS 75005421 75005973 75005421 ID=cds.MsaT004876.1;Parent=MsaT004876.1
Chr1 exon 75007122 75007231 75007122 ID=MsaT004876.1.exon2;Parent=MsaT004876.1
Chr1 CDS 75007122 75007231 75007122 ID=cds.MsaT004876.1;Parent=MsaT004876.1
Chr1 exon 75007426 75007597 75007426 ID=MsaT004876.1.exon3;Parent=MsaT004876.1
Chr1 CDS 75007426 75007597 75007426 ID=cds.MsaT004876.1;Parent=MsaT004876.1
Chr1 exon 75007881 75007918 75007881 ID=MsaT004876.1.exon4;Parent=MsaT004876.1
Chr1 CDS 75007881 75007918 75007881 ID=cds.MsaT004876.1;Parent=MsaT004876.1
Gene Sequence

>MsaT004876.1

ATGATATTTCAAGTTTCTGAAAGCGATACCAAGTTTTGCAAAATTATTGATGAAGACTGCCTTCGAAACGACGATTTGATGATTACAGCTTTGAGTAGTAAATTTTGGGATAATATTTCTAGCCCTATATGTCTTCAGCTTCCTGATAAAACCACATGGCTATTGGATTGGAAACAACATGATGATACTCATGTGTTATTAAACAAGTGGAAGGCATTTGCTGAAGCTTATTCTTTGAAGCATAATCAAGTTTTGCACTTCAACTACGTTGAAGCCTCATATCCCATCAGCATATTTAACCTATCCATTTTTGATGAAACTGGCACGGAAATATGTTACCCCATGCTATCCTCCTTGTTTTCCCCATGGGAAACCAAAACAACAAAACCTGCAGTTTCTTATTATCATCTCAATAGAATGAAGAAAACCAACCAACAAGAGGAGCCTAAACGCTATCGCAGCCTTCTTGCTGAGATATCTGGACAAACTCCATCTCAAATGACAATGCCCGTTGAGTATGCAGATTTTTATACCGCAAAACCTAAAAAAAGAGAAGCTATTGAATGTAGCACTGGAGCATTGGAGAGAGCCAAGGCTTGCCGCAGTCACAACAAATCTTTCATTCGTCAAATGCGCCCATCACACATTCAAAGAAATGTGCTGGTCATACCGCGCAACTTCTTAACAACACGTCAACAACAGGAGAGTGCTATGTTTTGGGTTGTTGAGGCGAAGAGATTTTGGCATGTCAAGTTAAAGCTTAACTCTTGCAATGGACAAATATCTTTTAATGATGGTTGGAAGAATTTTGTCACGGACAATAAATTGAAACTAGGCAGAGATCATTGCTTGTGTGATCCTCGTCCAAAGTAA
Protein sequence

>MsaT004876.1

MIFQVSESDTKFCKIIDEDCLRNDDLMITALSSKFWDNISSPICLQLPDKTTWLLDWKQHDDTHVLLNKWKAFAEAYSLKHNQVLHFNYVEASYPISIFNLSIFDETGTEICYPMLSSLFSPWETKTTKPAVSYYHLNRMKKTNQQEEPKRYRSLLAEISGQTPSQMTMPVEYADFYTAKPKKREAIECSTGALERAKACRSHNKSFIRQMRPSHIQRNVLVIPRNFLTTRQQQESAMFWVVEAKRFWHVKLKLNSCNGQISFNDGWKNFVTDNKLKLGRDHCLCDPRPK*