AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005944

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005944 MtrunA17_Chr1g0213701 78.529 340 27 5 1 336 1 298 0.0 526
MsaG005944 MtrunA17_Chr1g0198661 42.609 230 110 4 38 245 63 292 5.75e-54 181
MsaG005944 MtrunA17_Chr5g0422501 43.805 226 109 5 38 245 106 331 2.58e-50 172
MsaG005944 MtrunA17_Chr8g0345771 56.667 90 39 0 156 245 170 259 2.45e-28 114
MsaG005944 MtrunA17_Chr1g0178071 38.065 155 78 3 93 245 27 165 4.40e-28 111
MsaG005944 MtrunA17_Chr7g0276471 55.556 90 40 0 156 245 116 205 5.01e-28 113
MsaG005944 MtrunA17_Chr7g0266821 58.333 84 34 1 162 245 65 147 1.45e-26 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005944 AT1G50680.1 49.390 328 124 6 34 335 23 334 1.96e-97 292
MsaG005944 AT1G51120.1 54.804 281 98 7 33 285 41 320 6.08e-96 288
MsaG005944 AT1G13260.1 43.836 219 115 2 36 246 59 277 6.91e-55 183
MsaG005944 AT3G25730.1 46.667 225 97 6 36 246 59 274 7.22e-55 182
MsaG005944 AT1G25560.1 43.439 221 113 4 38 246 71 291 4.25e-53 179
MsaG005944 AT1G68840.2 43.256 215 114 4 38 245 64 277 1.23e-50 172
MsaG005944 AT1G68840.1 43.256 215 114 4 38 245 64 277 1.23e-50 172
MsaG005944 AT4G01500.1 55.769 104 43 2 156 259 34 134 3.76e-29 115
MsaG005944 AT1G01030.2 57.778 90 38 0 156 245 54 143 3.85e-29 115
MsaG005944 AT1G01030.1 57.778 90 38 0 156 245 54 143 4.91e-29 115
MsaG005944 AT2G46870.1 56.044 91 40 0 156 246 33 123 1.82e-28 112
MsaG005944 AT3G11580.1 55.000 100 34 2 157 245 28 127 5.85e-28 110
MsaG005944 AT2G36080.4 54.348 92 39 1 157 245 37 128 1.29e-27 106
MsaG005944 AT2G36080.2 54.348 92 39 1 157 245 37 128 1.29e-27 106
MsaG005944 AT3G11580.4 55.000 100 34 2 157 245 28 127 1.33e-27 108
MsaG005944 AT3G11580.2 55.000 100 34 2 157 245 28 127 1.33e-27 108
MsaG005944 AT3G11580.5 55.000 100 34 2 157 245 28 127 1.33e-27 108
MsaG005944 AT2G36080.1 54.348 92 39 1 157 245 37 128 1.76e-27 108
MsaG005944 AT2G36080.3 54.348 92 39 1 157 245 37 128 1.83e-27 108
MsaG005944 AT5G06250.4 51.515 99 38 1 157 245 45 143 7.07e-27 107
MsaG005944 AT5G06250.5 51.515 99 38 1 157 245 45 143 7.34e-27 107
MsaG005944 AT5G06250.2 51.515 99 38 1 157 245 45 143 8.25e-27 107
MsaG005944 AT5G06250.3 51.515 99 38 1 157 245 45 143 1.06e-26 107
MsaG005944 AT5G06250.1 51.515 99 38 1 157 245 45 143 1.33e-26 106
MsaG005944 AT3G61970.1 56.383 94 36 2 156 245 21 113 1.63e-26 107
MsaG005944 AT3G11580.3 55.000 100 34 2 157 245 28 127 9.18e-26 106
MsaG005944 AT1G35520.1 37.037 108 66 2 142 247 109 216 2.19e-11 65.5

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACTATTTGTCAAATTTAT+AGG 0.145940 1:+86928645 None:intergenic
GGCAAAGAATGTGTTATTAT+TGG 0.218931 1:-86928975 MsaT005944.1:CDS
TATTCCATGCAAAGTTTCTA+TGG 0.244957 1:+86929123 None:intergenic
ATAAAATACAATGGCGTCTT+TGG 0.254337 1:+86928677 None:intergenic
GCAAAGAATGTGTTATTATT+GGG 0.266195 1:-86928974 MsaT005944.1:CDS
AAGAAATGTTGCAAAATTAG+AGG 0.290015 1:+86929019 None:intergenic
CATGGAGGCTTAAGGCTCTT+TGG 0.298082 1:-86928414 MsaT005944.1:CDS
CAATCTACTAAGATAAATTA+TGG 0.303691 1:-86929344 MsaT005944.1:CDS
ATGCAAATCACCAAAGAATA+TGG 0.307810 1:-86929223 MsaT005944.1:CDS
TATATAGCATGATTTCAAAT+TGG 0.322219 1:-86929394 None:intergenic
CCTTCTTCCCAACATTTGTT+TGG 0.350273 1:+86928521 None:intergenic
GGAAGTTTCGATATTGCTAT+TGG 0.351130 1:-86928767 MsaT005944.1:CDS
GCCACAAACCAAAGGAAAAT+AGG 0.354261 1:+86928842 None:intergenic
ATGTCCCTAACCATATTCTT+TGG 0.362080 1:+86929213 None:intergenic
ATTACATCAATTAATGAAAA+TGG 0.362300 1:+86928609 None:intergenic
TTCTCCGCTTCTGAGCTTGA+TGG 0.364773 1:+86929148 None:intergenic
ACATAGGTTCTTGATCTGTT+TGG 0.380985 1:+86929099 None:intergenic
TATAAATTTGACAAATAGTA+AGG 0.384791 1:-86928643 MsaT005944.1:CDS
TATGAAGTAGAGGATGTTGC+AGG 0.394052 1:-86929305 MsaT005944.1:CDS
AATCACCAAAGAATATGGTT+AGG 0.402926 1:-86929218 MsaT005944.1:CDS
GCCTCAACAAAATGGACATT+GGG 0.403364 1:-86929258 MsaT005944.1:CDS
ATTATGATCATGATTAGAAA+TGG 0.417587 1:-86929050 MsaT005944.1:CDS
GTGATGTTGGTAAACTCAAT+AGG 0.419636 1:-86928893 MsaT005944.1:CDS
GGGGTTGTGCCTCAACAAAA+TGG 0.424759 1:-86929266 MsaT005944.1:CDS
CTATATTGACTTTGAAACAT+AGG 0.426018 1:+86929083 None:intergenic
ATTTCAAATTGGAGGATGAA+TGG 0.438567 1:-86929383 MsaT005944.1:CDS
ATGCGCATTATTATTATATG+TGG 0.438761 1:+86928434 None:intergenic
CTCTAGTGAACACATAGCTT+TGG 0.447985 1:+86928736 None:intergenic
CCAAACAAATGTTGGGAAGA+AGG 0.460355 1:-86928521 MsaT005944.1:CDS
CAGGGTGTCAAAAGTTCAAA+GGG 0.485838 1:-86929286 MsaT005944.1:CDS
TGTGAAGGATAAGAAATTGA+AGG 0.491722 1:-86928700 MsaT005944.1:CDS
ATAGCATGATTTCAAATTGG+AGG 0.493608 1:-86929391 None:intergenic
TGGAGGTGCCAAACAAATGT+TGG 0.497874 1:-86928529 MsaT005944.1:CDS
TATTATTGGGGTGAAGGGTG+AGG 0.498083 1:-86928961 MsaT005944.1:CDS
GTAATCTACAATGATATTGA+TGG 0.499329 1:-86928591 MsaT005944.1:CDS
AAGGTTAGTTTGCAATGAAG+TGG 0.504843 1:-86928502 MsaT005944.1:CDS
AGAAATGTTGCAAAATTAGA+GGG 0.510603 1:+86929020 None:intergenic
ATCTGAAAGAGATGCTGCCA+TGG 0.516688 1:-86929186 MsaT005944.1:CDS
GGAGGTGCCAAACAAATGTT+GGG 0.520137 1:-86928528 MsaT005944.1:CDS
ATCACCAAAGAATATGGTTA+GGG 0.522601 1:-86929217 MsaT005944.1:CDS
CACATTCTTTGCCTGCACCT+TGG 0.523069 1:+86928985 None:intergenic
TGTTCACTAGAGGATGGAAT+CGG 0.528136 1:-86928725 MsaT005944.1:CDS
ATGTGTTATTATTGGGGTGA+AGG 0.530392 1:-86928967 MsaT005944.1:CDS
TGCCTCAACAAAATGGACAT+TGG 0.540531 1:-86929259 MsaT005944.1:CDS
AGAAATCAAAGCCAAGGTGC+AGG 0.541294 1:-86928996 MsaT005944.1:CDS
ACATATAATAATAATGCGCA+TGG 0.545840 1:-86928432 MsaT005944.1:CDS
TGTGTTATTATTGGGGTGAA+GGG 0.552552 1:-86928966 MsaT005944.1:CDS
ATAATGCGCATGGAGGCTTA+AGG 0.552920 1:-86928422 MsaT005944.1:CDS
GAATTAACACCAAGTGATGT+TGG 0.555091 1:-86928906 MsaT005944.1:CDS
TCCGCTTCTGAGCTTGATGG+TGG 0.555403 1:+86929151 None:intergenic
TTTCTTAGAAATCAAAGCCA+AGG 0.556760 1:-86929002 MsaT005944.1:CDS
GCAGGGTGTCAAAAGTTCAA+AGG 0.558717 1:-86929287 MsaT005944.1:CDS
GCCACCATCAAGCTCAGAAG+CGG 0.559505 1:-86929152 MsaT005944.1:CDS
CAAAGAATGTGTTATTATTG+GGG 0.559724 1:-86928973 MsaT005944.1:CDS
ACGTACGAGGTATGAAGTAG+AGG 0.570592 1:-86929315 MsaT005944.1:CDS
TTGAGTTTACCAACATCACT+TGG 0.572392 1:+86928897 None:intergenic
ATGACAAACTCATGCGATTG+TGG 0.577545 1:-86928788 MsaT005944.1:CDS
GTTTCAAAGTCAATATAGCA+TGG 0.588580 1:-86929078 MsaT005944.1:CDS
CAAAGCTATGTGTTCACTAG+AGG 0.590350 1:-86928735 MsaT005944.1:CDS
GCTATGTGTTCACTAGAGGA+TGG 0.591052 1:-86928731 MsaT005944.1:CDS
ATAAATTTGACAAATAGTAA+GGG 0.592698 1:-86928642 MsaT005944.1:CDS
ATGAAGTAGAGGATGTTGCA+GGG 0.600015 1:-86929304 MsaT005944.1:CDS
TTTGAAGATGAGGAGGATGG+AGG 0.607761 1:-86928546 MsaT005944.1:CDS
CATATATTGCCACAAACCAA+AGG 0.617126 1:+86928834 None:intergenic
AAAGCCATAGAAACTTTGCA+TGG 0.630622 1:-86929127 MsaT005944.1:CDS
AGGATGGAATCGGTTTGTGA+AGG 0.633521 1:-86928715 MsaT005944.1:CDS
GGTGGCGCTGTCGTAAGCCA+TGG 0.650796 1:+86929169 None:intergenic
TATAATAATAATGCGCATGG+AGG 0.652988 1:-86928429 MsaT005944.1:CDS
TTCGCACCTATAAAATACAA+TGG 0.653423 1:+86928668 None:intergenic
GAAATGTTGCAAAATTAGAG+GGG 0.681722 1:+86929021 None:intergenic
ATTATGGTGCAAAACGTACG+AGG 0.696082 1:-86929328 MsaT005944.1:CDS
CCTCAACAAAATGGACATTG+GGG 0.726013 1:-86929257 MsaT005944.1:CDS
AGGGTGTCAAAAGTTCAAAG+GGG 0.762139 1:-86929285 MsaT005944.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 86928398 86929408 86928398 ID=MsaG005944
Chr1 mRNA 86928398 86929408 86928398 ID=MsaT005944.1;Parent=MsaG005944
Chr1 exon 86928398 86929408 86928398 ID=MsaT005944.1.exon1;Parent=MsaT005944.1
Chr1 CDS 86928398 86929408 86928398 ID=cds.MsaT005944.1;Parent=MsaT005944.1
Gene Sequence

>MsaT005944.1

ATGATTTCAAATTGGAGGATGAATGGAAGCTATGAAACTTCACAATCTACTAAGATAAATTATGGTGCAAAACGTACGAGGTATGAAGTAGAGGATGTTGCAGGGTGTCAAAAGTTCAAAGGGGTTGTGCCTCAACAAAATGGACATTGGGGTGCACAAATATATGCAAATCACCAAAGAATATGGTTAGGGACATTCAAATCTGAAAGAGATGCTGCCATGGCTTACGACAGCGCCACCATCAAGCTCAGAAGCGGAGAAAGCCATAGAAACTTTGCATGGAATAACCAAACAGATCAAGAACCTATGTTTCAAAGTCAATATAGCATGGAAACAATTATGATCATGATTAGAAATGGAACATACCCCTCTAATTTTGCAACATTTCTTAGAAATCAAAGCCAAGGTGCAGGCAAAGAATGTGTTATTATTGGGGTGAAGGGTGAGGAACAATTTTCTTGCACACAACTTTTTCAAAAAGAATTAACACCAAGTGATGTTGGTAAACTCAATAGGCTTGTCGTCCCCAAAAAACATGCAGTTACCTATTTTCCTTTGGTTTGTGGCAATATATGTAATGACGTAGAAGTTGTGTTTTATGACAAACTCATGCGATTGTGGAAGTTTCGATATTGCTATTGGAAGAGCAGCCAAAGCTATGTGTTCACTAGAGGATGGAATCGGTTTGTGAAGGATAAGAAATTGAAGGCCAAAGACGCCATTGTATTTTATAGGTGCGAACCTATAAATTTGACAAATAGTAAGGGAGAGAGACGACCATTTTCATTAATTGATGTAATCTACAATGATATTGATGGTAATAAGAAAATACATTATTCTTTTGAAGATGAGGAGGATGGAGGTGCCAAACAAATGTTGGGAAGAAGGTTAGTTTGCAATGAAGTGGATGATAAAGATACTAGAATAATAGATTTGAATGAGTTTCAATATTCCACATATAATAATAATGCGCATGGAGGCTTAAGGCTCTTTGGCGTAAGTATCAGCTGA
Protein sequence

>MsaT005944.1

MISNWRMNGSYETSQSTKINYGAKRTRYEVEDVAGCQKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSERDAAMAYDSATIKLRSGESHRNFAWNNQTDQEPMFQSQYSMETIMIMIRNGTYPSNFATFLRNQSQGAGKECVIIGVKGEEQFSCTQLFQKELTPSDVGKLNRLVVPKKHAVTYFPLVCGNICNDVEVVFYDKLMRLWKFRYCYWKSSQSYVFTRGWNRFVKDKKLKAKDAIVFYRCEPINLTNSKGERRPFSLIDVIYNDIDGNKKIHYSFEDEEDGGAKQMLGRRLVCNEVDDKDTRIIDLNEFQYSTYNNNAHGGLRLFGVSIS*