AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001783

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001783 MtrunA17_Chr1g0167821 94.737 209 10 1 13 221 39 246 1.00e-144 403
MsaG001783 MtrunA17_Chr2g0319301 53.371 178 77 3 49 221 54 230 1.92e-60 189
MsaG001783 MtrunA17_Chr4g0042041 47.907 215 102 5 16 221 24 237 2.16e-59 186
MsaG001783 MtrunA17_Chr2g0323031 44.344 221 114 6 2 221 48 260 7.25e-47 155
MsaG001783 MtrunA17_Chr4g0038511 39.103 156 69 6 69 199 11 165 2.16e-19 84.3
MsaG001783 MtrunA17_Chr1g0161461 43.396 106 55 2 69 174 82 182 1.99e-18 82.4
MsaG001783 MtrunA17_Chr4g0060591 39.091 110 63 2 53 162 20 125 3.79e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001783 AT4G14410.2 68.649 185 47 4 44 221 97 277 2.94e-82 246
MsaG001783 AT4G14410.3 68.649 185 47 4 44 221 97 277 2.94e-82 246
MsaG001783 AT4G14410.1 68.649 185 47 4 44 221 103 283 4.20e-82 246
MsaG001783 AT3G23210.2 57.416 209 76 4 23 221 86 291 2.35e-67 209
MsaG001783 AT3G23210.1 57.416 209 76 4 23 221 115 320 9.46e-67 208
MsaG001783 AT5G54680.1 50.000 192 89 2 37 221 43 234 1.21e-56 180
MsaG001783 AT1G51070.1 48.691 191 94 2 35 221 36 226 3.31e-55 176
MsaG001783 AT1G51070.2 50.279 179 86 1 46 221 114 292 1.60e-53 174
MsaG001783 AT3G19860.1 47.170 106 49 3 69 170 10 112 2.55e-19 84.3
MsaG001783 AT3G19860.2 47.170 106 49 3 69 170 63 165 6.32e-19 84.0
MsaG001783 AT3G19860.3 47.170 106 49 3 69 170 41 143 7.02e-19 83.6
MsaG001783 AT4G36060.4 40.171 117 65 2 69 185 31 142 1.70e-16 76.6
MsaG001783 AT4G36060.2 40.517 116 64 2 69 184 31 141 2.37e-16 76.3
MsaG001783 AT4G36060.3 40.171 117 65 2 69 185 49 160 3.66e-16 75.9
MsaG001783 AT4G36060.1 40.517 116 64 2 69 184 49 159 6.41e-16 75.1

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGGAAATAAAATCTTTAA+AGG 0.209434 1:+26554261 MsaT001783.1:CDS
TTGTGATTTGAGTGCTGTTT+TGG 0.271519 1:+26554123 MsaT001783.1:CDS
ATAAAACCTGCAGGGGAAAT+AGG 0.301935 1:-26555516 None:intergenic
ATTGGGATATATCCATAGTT+TGG 0.317921 1:-26555597 None:intergenic
GTGCTCACACTAGCAAATTC+AGG 0.322275 1:-26552630 None:intergenic
ATCTGTTCTCACAGGTCTAC+CGG 0.350855 1:-26554149 None:intergenic
ATGGCTGTTTATCCAAACTA+TGG 0.361363 1:+26555585 MsaT001783.1:CDS
TCAGAACAAGTTTCTCTTCA+CGG 0.386568 1:-26555452 None:intergenic
GAGGCCTGAGCTCATGATCT+TGG 0.387889 1:-26555656 None:intergenic
TCAAACACCAGTGAACAAAA+TGG 0.388530 1:+26555566 MsaT001783.1:CDS
CAGATAAAGATACCTCTTCC+TGG 0.418857 1:-26552946 None:intergenic
AGGCCTGAGCTCATGATCTT+GGG 0.448736 1:-26555655 None:intergenic
TATGCCTCCTCCTCCTCCAA+TGG 0.449165 1:+26555536 MsaT001783.1:CDS
ACCTGTGAGAACAGATAAAC+CGG 0.468490 1:+26554156 MsaT001783.1:CDS
ACTATGCCTATTTCCCCTGC+AGG 0.468634 1:+26555510 MsaT001783.1:CDS
GAGGAAGATAATGCCACATT+GGG 0.477873 1:-26555614 None:intergenic
GCAGCCATTGGAGGAGGAGG+AGG 0.490911 1:-26555540 None:intergenic
TGCTCACACTAGCAAATTCA+GGG 0.502448 1:-26552629 None:intergenic
ACAAGCAGAAATTAAGCAGC+AGG 0.508468 1:-26555678 None:intergenic
TGATAAGCAGCCATTGGAGG+AGG 0.517216 1:-26555546 None:intergenic
GGTGTTTGATAAGCAGCCAT+TGG 0.517778 1:-26555552 None:intergenic
CCAACTTAAAACTGAAGCTC+AGG 0.522601 1:+26554210 MsaT001783.1:CDS
GGAGGAGGCATAAAACCTGC+AGG 0.533663 1:-26555525 None:intergenic
AAGAAGAGAATGCTAGGAAG+AGG 0.534780 1:+26552688 MsaT001783.1:CDS
GCCGGTTTATCTGTTCTCAC+AGG 0.538866 1:-26554157 None:intergenic
TAAGCAGCCATTGGAGGAGG+AGG 0.543516 1:-26555543 None:intergenic
TGAGGAAGATAATGCCACAT+TGG 0.545126 1:-26555615 None:intergenic
TGACACACAACAGCACCACT+TGG 0.545599 1:-26552912 None:intergenic
AAGAAGAGAATACCAGGAAG+AGG 0.547183 1:+26552934 MsaT001783.1:CDS
GTTTGATAAGCAGCCATTGG+AGG 0.553241 1:-26555549 None:intergenic
TCTGTTCTCACAGGTCTACC+GGG 0.554290 1:-26554148 None:intergenic
TCTCCCTCCGCAATTTCTCA+CGG 0.557289 1:-26553513 None:intergenic
CGTCCCAAGATCATGAGCTC+AGG 0.561406 1:+26555652 MsaT001783.1:CDS
CGTGTCAAGAAGAGAATGCT+AGG 0.565617 1:+26552682 MsaT001783.1:CDS
GACGTATCGCGAGCTGATTG+AGG 0.568638 1:-26555633 None:intergenic
AAGCTTGCCGTGAGAAATTG+CGG 0.570587 1:+26553506 MsaT001783.1:CDS
ATAGCATCATCAAGTATAGC+CGG 0.585794 1:-26554175 None:intergenic
ACTGAATCATGCTACAAGGC+AGG 0.585888 1:+26553478 MsaT001783.1:CDS
TGTGTCAAGAAGAGAATACC+AGG 0.602682 1:+26552928 MsaT001783.1:CDS
TGAATTTGCTAGTGTGAGCA+CGG 0.605908 1:+26552632 MsaT001783.1:CDS
GAGGAGGCATAAAACCTGCA+GGG 0.616502 1:-26555524 None:intergenic
GGAGGGAGAAACTCAATGAA+AGG 0.627343 1:+26553527 MsaT001783.1:CDS
ACGCACTGAATCATGCTACA+AGG 0.638013 1:+26553474 MsaT001783.1:CDS
TGAATTTGCAAGTTTGAGCG+CGG 0.647365 1:+26552878 MsaT001783.1:intron
AGGAGGCATAAAACCTGCAG+GGG 0.652640 1:-26555523 None:intergenic
AGCAGAAATTAAGCAGCAGG+AGG 0.661269 1:-26555675 None:intergenic
TTGCCGTGAGAAATTGCGGA+GGG 0.661818 1:+26553510 MsaT001783.1:CDS
ATTTGACATTTCAAGTAGCG+CGG 0.670558 1:+26552656 MsaT001783.1:CDS
CTTGCCGTGAGAAATTGCGG+AGG 0.703693 1:+26553509 MsaT001783.1:CDS
ACTATGGATATATCCCAATG+TGG 0.718428 1:+26555601 MsaT001783.1:CDS
GCTCACACTAGCAAATTCAG+GGG 0.722549 1:-26552628 None:intergenic
GCGGAAACTGACATTCCAAG+TGG 0.725215 1:+26552897 MsaT001783.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 26552606 26555689 26552606 ID=MsaG001783
Chr1 mRNA 26552606 26555689 26552606 ID=MsaT001783.1;Parent=MsaG001783
Chr1 exon 26552606 26552709 26552606 ID=MsaT001783.1.exon1;Parent=MsaT001783.1
Chr1 CDS 26552606 26552709 26552606 ID=cds.MsaT001783.1;Parent=MsaT001783.1
Chr1 exon 26552890 26552955 26552890 ID=MsaT001783.1.exon2;Parent=MsaT001783.1
Chr1 CDS 26552890 26552955 26552890 ID=cds.MsaT001783.1;Parent=MsaT001783.1
Chr1 exon 26553471 26553548 26553471 ID=MsaT001783.1.exon3;Parent=MsaT001783.1
Chr1 CDS 26553471 26553548 26553471 ID=cds.MsaT001783.1;Parent=MsaT001783.1
Chr1 exon 26554120 26554282 26554120 ID=MsaT001783.1.exon4;Parent=MsaT001783.1
Chr1 CDS 26554120 26554282 26554120 ID=cds.MsaT001783.1;Parent=MsaT001783.1
Chr1 exon 26555435 26555689 26555435 ID=MsaT001783.1.exon5;Parent=MsaT001783.1
Chr1 CDS 26555435 26555689 26555435 ID=cds.MsaT001783.1;Parent=MsaT001783.1
Gene Sequence

>MsaT001783.1

ATGTCTGATACAACTTGTTCTTCCCCTGAATTTGCTAGTGTGAGCACGGAATTTGACATTTCAAGTAGCGCGGTTGCGTGTCAAGAAGAGAATGCTAGGAAGAGTTTGAGCGCGGAAACTGACATTCCAAGTGGTGCTGTTGTGTGTCAAGAAGAGAATACCAGGAAGAGGGGACGCACTGAATCATGCTACAAGGCAGGAACAAAAGCTTGCCGTGAGAAATTGCGGAGGGAGAAACTCAATGAAAGATTTTGTGATTTGAGTGCTGTTTTGGAACCCGGTAGACCTGTGAGAACAGATAAACCGGCTATACTTGATGATGCTATCAGAGTCTTGAGCCAACTTAAAACTGAAGCTCAGGAACTCAAAGAATCAAATGAAAAATTATTAGAGGAAATAAAATCTTTAAAGGCAGAGAAAAACGAACTCCGTGAAGAGAAACTTGTTCTGAAAGCTGATAAAGAGAAGATTGAGAAGCAATTGAAAACTATGCCTATTTCCCCTGCAGGTTTTATGCCTCCTCCTCCTCCAATGGCTGCTTATCAAACACCAGTGAACAAAATGGCTGTTTATCCAAACTATGGATATATCCCAATGTGGCATTATCTTCCTCAATCAGCTCGCGATACGTCCCAAGATCATGAGCTCAGGCCTCCTGCTGCTTAA
Protein sequence

>MsaT001783.1

MSDTTCSSPEFASVSTEFDISSSAVACQEENARKSLSAETDIPSGAVVCQEENTRKRGRTESCYKAGTKACREKLRREKLNERFCDLSAVLEPGRPVRTDKPAILDDAIRVLSQLKTEAQELKESNEKLLEEIKSLKAEKNELREEKLVLKADKEKIEKQLKTMPISPAGFMPPPPPMAAYQTPVNKMAVYPNYGYIPMWHYLPQSARDTSQDHELRPPAA*