AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000381

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000381 MtrunA17_Chr1g0152431 99.487 195 1 0 1 195 1 195 3.20e-146 404
MsaG000381 MtrunA17_Chr4g0059371 66.857 175 57 1 2 176 3 176 1.34e-87 255
MsaG000381 MtrunA17_Chr3g0113051 58.757 177 69 2 1 175 1 175 2.38e-70 212
MsaG000381 MtrunA17_Chr8g0349391 50.820 183 83 3 1 182 1 177 2.08e-61 189
MsaG000381 MtrunA17_Chr8g0386501 54.802 177 68 4 1 175 1 167 7.71e-61 188
MsaG000381 MtrunA17_Chr7g0247111 50.857 175 82 2 1 175 1 171 2.58e-60 187
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000381 AT1G10200.1 85.246 183 27 0 1 183 1 183 2.73e-116 328
MsaG000381 AT1G10200.2 82.014 139 25 0 45 183 3 141 2.88e-82 241
MsaG000381 AT1G10200.2 44.444 72 40 0 3 74 61 132 2.29e-16 72.8
MsaG000381 AT2G39900.1 58.192 177 69 2 1 175 1 174 2.22e-69 210
MsaG000381 AT3G55770.3 55.307 179 70 2 1 175 1 173 2.62e-67 205
MsaG000381 AT3G55770.3 43.678 87 49 0 103 189 3 89 5.99e-16 73.2
MsaG000381 AT3G55770.5 55.307 179 70 2 1 175 1 173 2.62e-67 205
MsaG000381 AT3G55770.5 43.678 87 49 0 103 189 3 89 5.99e-16 73.2
MsaG000381 AT3G55770.2 55.307 179 70 2 1 175 1 173 2.62e-67 205
MsaG000381 AT3G55770.2 43.678 87 49 0 103 189 3 89 5.99e-16 73.2
MsaG000381 AT3G55770.1 55.307 179 70 2 1 175 1 173 2.62e-67 205
MsaG000381 AT3G55770.1 43.678 87 49 0 103 189 3 89 5.99e-16 73.2
MsaG000381 AT2G45800.1 50.000 186 86 2 1 183 1 182 3.89e-61 190
MsaG000381 AT1G01780.1 48.649 185 87 3 1 183 1 179 2.25e-60 187
MsaG000381 AT3G61230.1 47.917 192 93 3 2 190 3 190 8.88e-60 186
MsaG000381 AT3G61230.1 36.792 106 67 0 3 108 100 205 3.67e-17 76.6
MsaG000381 AT3G55770.7 46.479 213 70 3 1 175 1 207 1.66e-59 186
MsaG000381 AT3G55770.7 43.678 87 49 0 103 189 3 89 1.47e-15 72.8
MsaG000381 AT3G55770.4 48.201 139 61 3 1 135 1 132 2.24e-40 134
MsaG000381 AT3G55770.4 43.678 87 49 0 103 189 3 89 5.69e-17 74.3
MsaG000381 AT2G45800.2 45.455 154 76 3 34 184 4 152 5.13e-39 132
MsaG000381 AT2G45800.2 50.725 69 34 0 3 71 68 136 1.38e-16 74.7
MsaG000381 AT3G55770.6 48.462 130 57 2 1 126 1 124 1.99e-38 129
MsaG000381 AT3G55770.6 43.678 87 49 0 103 189 3 89 6.07e-17 73.9

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATTATCTATATTTCTTTC+TGG 0.117591 1:-5145419 None:intergenic
TCCCTCATGTGCTATGTAAT+TGG 0.275186 1:-5145979 None:intergenic
AGCATTTGAAACAACTCTTA+TGG 0.319973 1:-5145929 None:intergenic
TTTATAAAGGTTACAGTGAA+TGG 0.352930 1:+5145897 MsaT000381.1:intron
TTTGCTTGATCAGTTGAATA+TGG 0.353364 1:-5146022 None:intergenic
GATCAACTGTTCAAAAGAAC+TGG 0.398776 1:+5145255 MsaT000381.1:CDS
CTTGAGGCTTTAGCTGCTGC+AGG 0.425078 1:-5145537 None:intergenic
TATTCAACTGATCAAGCAAA+AGG 0.432443 1:+5146025 MsaT000381.1:CDS
GCTAAAGCCTCAAGTATGTT+TGG 0.441559 1:+5145546 MsaT000381.1:CDS
ACACTAATTACCTTCTCTGT+TGG 0.465114 1:-5145612 None:intergenic
GGAAATTTGAGCCAGCTTGA+AGG 0.475377 1:+5146047 MsaT000381.1:CDS
GGAACAAGGGACAAATGTTC+TGG 0.477611 1:+5145570 MsaT000381.1:CDS
TCTCATGGTCACCTTCAAGC+TGG 0.480325 1:-5146058 None:intergenic
CAAGTATGTTTGGTGGAACA+AGG 0.495604 1:+5145556 MsaT000381.1:CDS
TTGAAACAACTCTTATGGTA+AGG 0.498185 1:-5145924 None:intergenic
AGAAAGAAATATAGATAATG+AGG 0.518674 1:+5145421 MsaT000381.1:CDS
CCTTGAGGGTTCCTTTGCAG+TGG 0.520760 1:-5144777 None:intergenic
GAGAGAGACATAGACCTTGA+GGG 0.525903 1:-5144791 None:intergenic
GACTAATAGTACACCCTCCA+TGG 0.536605 1:-5145953 None:intergenic
AGGAACAACTCAGAAGTGTA+TGG 0.560932 1:+5144675 MsaT000381.1:CDS
ATTCAACTGATCAAGCAAAA+GGG 0.562604 1:+5146026 MsaT000381.1:CDS
AGTTGTTTCAAATGCTGCCA+TGG 0.564010 1:+5145936 MsaT000381.1:CDS
GACATCTGAAACAAGCTTTG+TGG 0.565667 1:-5144753 None:intergenic
TTCCAATTACATAGCACATG+AGG 0.574672 1:+5145977 MsaT000381.1:CDS
TTCAGATGTCACCACTGCAA+AGG 0.582786 1:+5144766 MsaT000381.1:CDS
GCTTGATCAGTTGAATATGG+TGG 0.582930 1:-5146019 None:intergenic
AAAGCCTCAAGTATGTTTGG+TGG 0.587944 1:+5145549 MsaT000381.1:CDS
GTTTCAAATGCTGCCATGGA+GGG 0.597804 1:+5145940 MsaT000381.1:CDS
TTGAACAGTTGATCAAAGTG+TGG 0.606620 1:-5145246 None:intergenic
TGTTCCACCAAACATACTTG+AGG 0.606764 1:-5145553 None:intergenic
AACAGTGTATCCAACAGAGA+AGG 0.613878 1:+5145602 MsaT000381.1:CDS
TCCAATTACATAGCACATGA+GGG 0.619052 1:+5145978 MsaT000381.1:CDS
TCATGTGCTATGTAATTGGA+AGG 0.623562 1:-5145975 None:intergenic
AAGTATGTTTGGTGGAACAA+GGG 0.641097 1:+5145557 MsaT000381.1:CDS
CCACTGCAAAGGAACCCTCA+AGG 0.664342 1:+5144777 MsaT000381.1:CDS
TGTTTCAAATGCTGCCATGG+AGG 0.668776 1:+5145939 MsaT000381.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 5144664 5146127 5144664 ID=MsaG000381
Chr1 mRNA 5144664 5146127 5144664 ID=MsaT000381.1;Parent=MsaG000381
Chr1 exon 5144664 5144798 5144664 ID=MsaT000381.1.exon1;Parent=MsaT000381.1
Chr1 CDS 5144664 5144798 5144664 ID=cds.MsaT000381.1;Parent=MsaT000381.1
Chr1 exon 5145204 5145300 5145204 ID=MsaT000381.1.exon2;Parent=MsaT000381.1
Chr1 CDS 5145204 5145300 5145204 ID=cds.MsaT000381.1;Parent=MsaT000381.1
Chr1 exon 5145399 5145442 5145399 ID=MsaT000381.1.exon3;Parent=MsaT000381.1
Chr1 CDS 5145399 5145442 5145399 ID=cds.MsaT000381.1;Parent=MsaT000381.1
Chr1 exon 5145534 5145623 5145534 ID=MsaT000381.1.exon4;Parent=MsaT000381.1
Chr1 CDS 5145534 5145623 5145534 ID=cds.MsaT000381.1;Parent=MsaT000381.1
Chr1 exon 5145906 5146127 5145906 ID=MsaT000381.1.exon5;Parent=MsaT000381.1
Chr1 CDS 5145906 5146127 5145906 ID=cds.MsaT000381.1;Parent=MsaT000381.1
Gene Sequence

>MsaT000381.1

ATGGCATTTGCAGGAACAACTCAGAAGTGTATGGCTTGTAGCAAAACAGTTTATCTTGTTGATAAGTTAACTGCTGATAATAGAATTTTCCACAAAGCTTGTTTCAGATGTCACCACTGCAAAGGAACCCTCAAGCTAAGCAACTACAATTCTTTTGAGGGAGTTCTTTACTGCAGACCACACTTTGATCAACTGTTCAAAAGAACTGGTAGCCTTGAAAAAAGCTTTGAAGGGACACCAAAAATTGTCAAACCAGAAAGAAATATAGATAATGAGAAACCTGCAGCAGCTAAAGCCTCAAGTATGTTTGGTGGAACAAGGGACAAATGTTCTGGTTGTCAGAAAACAGTGTATCCAACAGAGAAGGTTACAGTGAATGGAACTCCTTACCATAAGAGTTGTTTCAAATGCTGCCATGGAGGGTGTACTATTAGTCCTTCCAATTACATAGCACATGAGGGAAAACTCTACTGCAAACACCACCATATTCAACTGATCAAGCAAAAGGGAAATTTGAGCCAGCTTGAAGGTGACCATGAGAAAAATGCTGGGAAAATCAATGGCGAAGAAGTTGCAGCTGAAACTTGA
Protein sequence

>MsaT000381.1

MAFAGTTQKCMACSKTVYLVDKLTADNRIFHKACFRCHHCKGTLKLSNYNSFEGVLYCRPHFDQLFKRTGSLEKSFEGTPKIVKPERNIDNEKPAAAKASSMFGGTRDKCSGCQKTVYPTEKVTVNGTPYHKSCFKCCHGGCTISPSNYIAHEGKLYCKHHHIQLIKQKGNLSQLEGDHEKNAGKINGEEVAAET*