AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008382

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008382 MtrunA17_Chr1g0162721 46.212 132 32 6 3 98 90 218 6.29e-19 83.6
MsaG008382 MtrunA17_Chr2g0302501 63.636 55 3 1 1 38 46 100 5.72e-15 69.3
MsaG008382 MtrunA17_Chr4g0065261 55.072 69 30 1 162 230 87 154 1.21e-13 67.0
MsaG008382 MtrunA17_Chr2g0302481 72.093 43 12 0 188 230 125 167 2.10e-12 63.5
MsaG008382 MtrunA17_Chr8g0373571 42.466 73 41 1 157 229 252 323 1.67e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTGAACTGGCACAGAATT+TGG 0.111644 2:-33463072 MsaT008382.1:CDS
CCCTGATTTCAACAAATTAT+TGG 0.123280 2:-33463656 MsaT008382.1:CDS
GATTTATGCTTCTTGCTTAA+AGG 0.205521 2:+33463269 None:intergenic
GATGAGCTAGACTCTCTTTA+TGG 0.210298 2:-33459590 MsaT008382.1:CDS
GCCAATAATTTGTTGAAATC+AGG 0.221242 2:+33463655 None:intergenic
ACAGATTGTTCTTGTTCTTC+TGG 0.258077 2:-33463524 MsaT008382.1:intron
AAAGAAGAAAAGAAAGAAAA+AGG 0.264596 2:-33457739 MsaT008382.1:CDS
TGCATCGCCTCTAAAATAAA+AGG 0.304013 2:+33460064 None:intergenic
TGGACCATTTGAGGAGATTC+AGG 0.304080 2:-33460039 MsaT008382.1:intron
TCTGAACTGGCACAGAATTT+GGG 0.326766 2:-33463071 MsaT008382.1:CDS
CACTCTTAAGGATGAAAATT+CGG 0.352734 2:-33457494 MsaT008382.1:CDS
TTCTGCACTTCAGCGGCCAC+TGG 0.401407 2:+33460121 None:intergenic
TCAAAAGATAAACACTCTTA+AGG 0.422261 2:-33457506 MsaT008382.1:CDS
CTAGCTCATCAGTGTAAACT+TGG 0.424997 2:+33459603 None:intergenic
GATTCCCGAGCCAAATGGTT+AGG 0.431955 2:-33459566 MsaT008382.1:CDS
AAGATCAAAGATAAAGAAAC+AGG 0.437513 2:-33457693 MsaT008382.1:intron
CCAATAATTTGTTGAAATCA+GGG 0.450010 2:+33463656 None:intergenic
TACCTCATAACCTAACCATT+TGG 0.455020 2:+33459556 None:intergenic
CTCAATAGAATCGTTCTCAT+TGG 0.468894 2:+33457423 None:intergenic
GCTCAGTGAGCATTTGTGTC+AGG 0.475920 2:+33457470 None:intergenic
AGCCAAATGGTTAGGTTATG+AGG 0.476309 2:-33459558 MsaT008382.1:intron
TGTAGAAAATCCATCTGAAC+TGG 0.477335 2:-33463084 MsaT008382.1:intron
AAATTCTGTGCCAGTTCAGA+TGG 0.483212 2:+33463074 None:intergenic
CGATGCAAGTGGACCATTTG+AGG 0.495298 2:-33460048 MsaT008382.1:CDS
ATGGAGATTCCCGAGCCAAA+TGG 0.502261 2:-33459571 MsaT008382.1:CDS
TGTACCTGAATCTCCTCAAA+TGG 0.510005 2:+33460035 None:intergenic
CAAACCTATGCTACCACACT+GGG 0.529777 2:-33464079 None:intergenic
CATAACCTAACCATTTGGCT+CGG 0.534811 2:+33459561 None:intergenic
GCATCCCAGTGTGGTAGCAT+AGG 0.536303 2:+33464075 None:intergenic
ATAACCTAACCATTTGGCTC+GGG 0.537263 2:+33459562 None:intergenic
ACAAACCTATGCTACCACAC+TGG 0.565484 2:-33464080 None:intergenic
CAATGAGAACGATTCTATTG+AGG 0.578375 2:-33457422 MsaT008382.1:intron
ACACTGGGATGCAACTATGC+AGG 0.581843 2:-33464064 MsaT008382.1:intron
TCAGATTAATTGTGATCCAG+TGG 0.607330 2:-33460137 MsaT008382.1:intron
CTGAACTGGCACAGAATTTG+GGG 0.608435 2:-33463070 MsaT008382.1:CDS
GAATTTGGGGACAGTCGTCA+AGG 0.619324 2:-33463057 MsaT008382.1:CDS
TCTAACATGATTACTGAGGA+CGG 0.623635 2:-33463248 MsaT008382.1:intron
ACAGGGATGGGACTTCAATG+AGG 0.680768 2:-33463548 MsaT008382.1:intron
TGCATAGTTGCATCCCAGTG+TGG 0.681276 2:+33464066 None:intergenic
TAAATCTAACATGATTACTG+AGG 0.684804 2:-33463252 MsaT008382.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 33457191 33464094 33457191 ID=MsaG008382
Chr2 mRNA 33457191 33464094 33457191 ID=MsaT008382.1;Parent=MsaG008382
Chr2 exon 33457191 33457199 33457191 ID=MsaT008382.1.exon10;Parent=MsaT008382.1
Chr2 CDS 33457191 33457199 33457191 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33457423 33457548 33457423 ID=MsaT008382.1.exon9;Parent=MsaT008382.1
Chr2 CDS 33457423 33457548 33457423 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33457694 33457771 33457694 ID=MsaT008382.1.exon8;Parent=MsaT008382.1
Chr2 CDS 33457694 33457771 33457694 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33459559 33459634 33459559 ID=MsaT008382.1.exon7;Parent=MsaT008382.1
Chr2 CDS 33459559 33459634 33459559 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33460040 33460155 33460040 ID=MsaT008382.1.exon6;Parent=MsaT008382.1
Chr2 CDS 33460040 33460155 33460040 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33463013 33463101 33463013 ID=MsaT008382.1.exon5;Parent=MsaT008382.1
Chr2 CDS 33463013 33463101 33463013 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33463249 33463297 33463249 ID=MsaT008382.1.exon4;Parent=MsaT008382.1
Chr2 CDS 33463249 33463297 33463249 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33463525 33463566 33463525 ID=MsaT008382.1.exon3;Parent=MsaT008382.1
Chr2 CDS 33463525 33463566 33463525 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33463636 33463719 33463636 ID=MsaT008382.1.exon2;Parent=MsaT008382.1
Chr2 CDS 33463636 33463719 33463636 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Chr2 exon 33464065 33464094 33464065 ID=MsaT008382.1.exon1;Parent=MsaT008382.1
Chr2 CDS 33464065 33464094 33464065 ID=cds.MsaT008382.1;Parent=MsaT008382.1
Gene Sequence

>MsaT008382.1

ATGCTACCACACTGGGATGCAACTATGCAGGTTGCTGCACAGGCTTTTTCAGAAATGGTACACAGAAGAAACCCTGATTTCAACAAATTATTGGCTAGAAACTCAAAGCCTGATGGATGGGACTTCAATGAGGTACAGATTGTTCTTGTTCTTCTGGTGTCTCCTTTAAGCAAGAAGCATAAATCTAACATGATTACTGAGGACGAAAATCCATCTGAACTGGCACAGAATTTGGGGACAGTCGTCAAGGAATCTGACACTGATGTTGATGTTGATGCTAAACTAAAAAATATGATTAATTGTGATCCAGTGGCCGCTGAAGTGCAGAAAATGCATAATCAAATTGAACAATTGCAAGCTGATCCTTTTATTTTAGAGGCGATGCAAGTGGACCATTTGAGGAGATTCAGATATGGAAACCAAGTTTACACTGATGAGCTAGACTCTCTTTATGGAGATTCCCGAGCCAAATGGTTAGGTTATGAGGAAGATGATGAAAGAAGAAAAGAAAGAAAAAGGCTGTCAAACAGGAAATCTGCTAAAAGATCAAAGATAAAGAAACAGAAAGAATATGAAGAACAATGTCAAAAGATAAACACTCTTAAGGATGAAAATTCGGTCCTGACACAAATGCTCACTGAGCTTTCAGAGAAATGTCTCGAGCTCACCAATGAGAACGATTCTATTGAGACTTTCTAG
Protein sequence

>MsaT008382.1

MLPHWDATMQVAAQAFSEMVHRRNPDFNKLLARNSKPDGWDFNEVQIVLVLLVSPLSKKHKSNMITEDENPSELAQNLGTVVKESDTDVDVDAKLKNMINCDPVAAEVQKMHNQIEQLQADPFILEAMQVDHLRRFRYGNQVYTDELDSLYGDSRAKWLGYEEDDERRKERKRLSNRKSAKRSKIKKQKEYEEQCQKINTLKDENSVLTQMLTELSEKCLELTNENDSIETF*