AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040552

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040552 MtrunA17_Chr7g0271741 100.000 202 0 0 1 202 1 202 2.40e-149 412
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040552 AT3G05760.1 72.000 200 54 1 4 201 2 201 7.46e-95 275
MsaG040552 AT3G05760.2 79.021 143 30 0 5 147 3 145 6.70e-83 243

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTGACGTTGCTGCCTTGA+TGG 0.273991 7:+101456835 MsaT040552.1:CDS
AACTACTTGGATCATATTAA+TGG 0.276389 7:+101455276 MsaT040552.1:CDS
GCAACGTCAGGATCCATTTC+AGG 0.287879 7:-101456824 None:intergenic
GTTGCTGCCTTGATGGGGTT+TGG 0.376323 7:+101456842 MsaT040552.1:CDS
CCTGACGTTGCTGCCTTGAT+GGG 0.380236 7:+101456836 MsaT040552.1:CDS
AGAAAGAAAGCGACTGCGTC+GGG 0.394814 7:+101456524 MsaT040552.1:CDS
TCATAATCTCTATGTTTCAA+TGG 0.398737 7:-101453641 None:intergenic
AATTGAACTTACACTGTTGC+TGG 0.398841 7:-101453313 None:intergenic
CTTGCTCTGTAAAGCTTCCT+AGG 0.401772 7:-101456128 None:intergenic
TCAAGTACCTGTTGGCTTAG+TGG 0.422359 7:-101454038 None:intergenic
AGCAGTAGAAGAACCTGAAA+TGG 0.433262 7:+101456811 MsaT040552.1:CDS
TCCACAGATCAGAGAGCGTT+GGG 0.434413 7:+101455399 MsaT040552.1:intron
ATTCGGTTGAATTAGGCCGC+TGG 0.437263 7:+101453409 MsaT040552.1:intron
CCCATCAAGGCAGCAACGTC+AGG 0.440366 7:-101456836 None:intergenic
TGCTCGTGAGCGTGAGAGAC+AGG 0.449139 7:+101453483 MsaT040552.1:CDS
TGAACGTTCTTCTCTCAAAC+AGG 0.469716 7:+101455437 MsaT040552.1:CDS
TTCGGTTGAATTAGGCCGCT+GGG 0.484855 7:+101453410 MsaT040552.1:intron
TTCAATGGCTTCCTCTGCAC+CGG 0.489779 7:-101453626 None:intergenic
GAAGGACTCAGCAAACTACT+TGG 0.508744 7:+101455263 MsaT040552.1:CDS
GGTTGCACCACTAAGCCAAC+AGG 0.522528 7:+101454031 MsaT040552.1:CDS
GAAGAGAAAGCAAAACCTAA+AGG 0.524374 7:+101453508 MsaT040552.1:CDS
AAGAAAGAAAGCGACTGCGT+CGG 0.529732 7:+101456523 MsaT040552.1:CDS
GGTTTGAAAATCTGAAGAAA+CGG 0.530251 7:+101456100 MsaT040552.1:CDS
TGTTGGCTTAGTGGTGCAAC+CGG 0.533524 7:-101454029 None:intergenic
ATATATAGGTAGAGGTCCTC+CGG 0.536652 7:+101453607 MsaT040552.1:intron
TTCCACAGATCAGAGAGCGT+TGG 0.536771 7:+101455398 MsaT040552.1:intron
GTAGACCTTGAATCCCGCTT+GGG 0.547442 7:+101453665 MsaT040552.1:CDS
GCTGCCTTGATGGGGTTTGG+AGG 0.549348 7:+101456845 MsaT040552.1:CDS
AGTAGACCTTGAATCCCGCT+TGG 0.550337 7:+101453664 MsaT040552.1:CDS
GTAGAGGTCCTCCGGTGCAG+AGG 0.551585 7:+101453615 MsaT040552.1:CDS
AGTTTGTGAGTGCGTGGTGA+AGG 0.552418 7:+101455245 MsaT040552.1:CDS
CTAGGAAGCTTTACAGAGCA+AGG 0.559657 7:+101456129 MsaT040552.1:CDS
AATGGCTTCCTCTGCACCGG+AGG 0.560400 7:-101453623 None:intergenic
CTGACGTTGCTGCCTTGATG+GGG 0.560761 7:+101456837 MsaT040552.1:CDS
CTGAAGAAACGGAAAGACCT+AGG 0.564143 7:+101456111 MsaT040552.1:CDS
ATTAAAACAGCAACAAGAAG+AGG 0.569720 7:+101456500 MsaT040552.1:CDS
AAAACCTCCAAACCCCATCA+AGG 0.581455 7:-101456849 None:intergenic
CTGCTCAGTTTGTGAGTGCG+TGG 0.632386 7:+101455239 MsaT040552.1:CDS
GATGAACGCAGGTTCAGGAA+CGG 0.633829 7:+101456079 MsaT040552.1:intron
TCGGTTGAATTAGGCCGCTG+GGG 0.650254 7:+101453411 MsaT040552.1:intron
TGAACTTACACTGTTGCTGG+TGG 0.666094 7:-101453310 None:intergenic
GAATGTGTTGTCAACCCCAG+CGG 0.671454 7:-101453425 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 101453300 101456892 101453300 ID=MsaG040552
Chr7 mRNA 101453300 101456892 101453300 ID=MsaT040552.1;Parent=MsaG040552
Chr7 exon 101453300 101453323 101453300 ID=MsaT040552.1.exon1;Parent=MsaT040552.1
Chr7 CDS 101453300 101453323 101453300 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Chr7 exon 101453424 101453529 101453424 ID=MsaT040552.1.exon2;Parent=MsaT040552.1
Chr7 CDS 101453424 101453529 101453424 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Chr7 exon 101453615 101453697 101453615 ID=MsaT040552.1.exon3;Parent=MsaT040552.1
Chr7 CDS 101453615 101453697 101453615 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Chr7 exon 101454020 101454052 101454020 ID=MsaT040552.1.exon4;Parent=MsaT040552.1
Chr7 CDS 101454020 101454052 101454020 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Chr7 exon 101455228 101455306 101455228 ID=MsaT040552.1.exon5;Parent=MsaT040552.1
Chr7 CDS 101455228 101455306 101455228 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Chr7 exon 101455406 101455458 101455406 ID=MsaT040552.1.exon6;Parent=MsaT040552.1
Chr7 CDS 101455406 101455458 101455406 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Chr7 exon 101456090 101456150 101456090 ID=MsaT040552.1.exon7;Parent=MsaT040552.1
Chr7 CDS 101456090 101456150 101456090 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Chr7 exon 101456484 101456563 101456484 ID=MsaT040552.1.exon8;Parent=MsaT040552.1
Chr7 CDS 101456484 101456563 101456484 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Chr7 exon 101456803 101456892 101456803 ID=MsaT040552.1.exon9;Parent=MsaT040552.1
Chr7 CDS 101456803 101456892 101456803 ID=cds.MsaT040552.1;Parent=MsaT040552.1
Gene Sequence

>MsaT040552.1

ATGTCTAACACCACCAGCAACAGTGCCGCTGGGGTTGACAACACATTCAGAAGAAAATTCGATCGTGAAGAGTATCTTGAACGTGCTCGTGAGCGTGAGAGACAGGAAGAAGAGAAAGCAAAACCTAAAGGTAGAGGTCCTCCGGTGCAGAGGAAGCCATTGAAACATAGAGATTATGAAGTAGACCTTGAATCCCGCTTGGGAAAAACTCAGGTTGTAACACCGGTTGCACCACTAAGCCAACAGGCTGGATATTACTGCTCAGTTTGTGAGTGCGTGGTGAAGGACTCAGCAAACTACTTGGATCATATTAATGGAAAGAAACATCAGAGAGCGTTGGGCATGTCTATGCGAGCTGAACGTTCTTCTCTCAAACAGGTTCAGGAACGGTTTGAAAATCTGAAGAAACGGAAAGACCTAGGAAGCTTTACAGAGCAAGATTTTGATGAAAGGATATTAAAACAGCAACAAGAAGAGGAAGAAAGAAAGCGACTGCGTCGGGAAAAGAAAAAAGAAAAGAAGAAGGAAGCAGTAGAAGAACCTGAAATGGATCCTGACGTTGCTGCCTTGATGGGGTTTGGAGGTTTTCGGTCATCCAACAAAAAGTGA
Protein sequence

>MsaT040552.1

MSNTTSNSAAGVDNTFRRKFDREEYLERARERERQEEEKAKPKGRGPPVQRKPLKHRDYEVDLESRLGKTQVVTPVAPLSQQAGYYCSVCECVVKDSANYLDHINGKKHQRALGMSMRAERSSLKQVQERFENLKKRKDLGSFTEQDFDERILKQQQEEEERKRLRREKKKEKKKEAVEEPEMDPDVAALMGFGGFRSSNKK*