AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002512

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002512 MtrunA17_Chr1g0175651 95.066 304 5 4 1 302 1 296 0.0 575
MsaG002512 MtrunA17_Chr7g0258831 68.727 275 74 7 1 265 1 273 2.24e-119 344
MsaG002512 MtrunA17_Chr2g0308611 52.071 338 90 10 1 278 1 326 4.33e-82 251
MsaG002512 MtrunA17_Chr4g0055851 59.535 215 66 5 81 291 57 254 2.29e-74 229
MsaG002512 MtrunA17_Chr5g0399491 62.564 195 50 5 81 266 71 251 1.78e-71 223
MsaG002512 MtrunA17_Chr4g0054421 79.070 129 25 1 138 264 111 239 1.08e-68 214
MsaG002512 MtrunA17_Chr8g0335131 62.162 185 39 4 98 263 86 258 6.59e-64 203
MsaG002512 MtrunA17_Chr5g0400781 75.000 124 30 1 143 265 113 236 3.41e-62 198
MsaG002512 MtrunA17_Chr1g0151971 55.249 181 64 5 94 265 73 245 1.08e-54 179
MsaG002512 MtrunA17_Chr4g0044091 65.323 124 36 2 147 263 59 182 3.98e-47 157
MsaG002512 MtrunA17_Chr3g0135331 63.235 136 49 1 143 278 136 270 1.18e-45 156
MsaG002512 MtrunA17_Chr2g0299031 56.296 135 49 3 135 264 66 195 3.96e-39 137
MsaG002512 MtrunA17_Chr4g0071411 57.018 114 45 1 154 263 90 203 2.39e-34 124
MsaG002512 MtrunA17_Chr7g0217111 37.647 170 97 3 111 276 40 204 9.06e-22 92.4
MsaG002512 MtrunA17_Chr4g0060031 46.667 120 60 2 120 239 67 182 1.25e-19 87.8
MsaG002512 MtrunA17_Chr5g0416391 45.283 106 54 1 144 245 69 174 2.27e-18 83.2
MsaG002512 MtrunA17_Chr8g0362151 42.609 115 62 1 135 245 60 174 3.39e-18 82.8
MsaG002512 MtrunA17_Chr3g0123691 34.973 183 108 4 102 274 10 191 5.85e-18 82.4
MsaG002512 MtrunA17_Chr7g0265521 42.105 95 55 0 145 239 56 150 8.83e-18 80.9
MsaG002512 MtrunA17_Chr6g0450991 41.026 117 69 0 149 265 64 180 9.02e-18 81.6
MsaG002512 MtrunA17_Chr1g0179581 44.828 87 48 0 148 234 24 110 1.83e-17 76.6
MsaG002512 MtrunA17_Chr8g0381741 43.200 125 61 2 122 239 27 148 3.63e-17 80.5
MsaG002512 MtrunA17_Chr6g0453021 40.136 147 74 4 105 238 44 189 4.91e-17 79.3
MsaG002512 MtrunA17_Chr3g0119291 46.226 106 48 2 143 239 48 153 5.51e-17 79.0
MsaG002512 MtrunA17_Chr5g0415941 46.809 94 43 1 152 238 87 180 1.87e-16 78.6
MsaG002512 MtrunA17_Chr8g0362751 44.681 94 45 1 152 238 89 182 2.33e-15 74.7
MsaG002512 MtrunA17_Chr5g0403691 40.741 108 60 1 129 236 34 137 2.29e-11 62.4
MsaG002512 MtrunA17_Chr8g0346251 44.595 74 41 0 164 237 53 126 4.20e-11 62.0
MsaG002512 MtrunA17_Chr3g0127511 40.625 96 50 1 155 243 41 136 4.47e-11 62.0
MsaG002512 MtrunA17_Chr5g0403701 40.000 110 62 1 129 238 34 139 4.50e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002512 AT5G06710.1 51.543 324 81 9 1 267 1 305 1.67e-87 265
MsaG002512 AT5G47370.1 52.075 265 104 11 48 297 22 278 2.33e-70 219
MsaG002512 AT3G60390.1 59.406 202 60 6 81 263 76 274 1.53e-68 216
MsaG002512 AT4G37790.1 79.508 122 25 0 143 264 117 238 6.81e-66 208
MsaG002512 AT4G16780.1 59.535 215 68 7 81 290 68 268 5.13e-65 206
MsaG002512 AT4G17460.1 49.624 266 84 10 48 283 21 266 1.10e-64 205
MsaG002512 AT2G44910.1 57.426 202 63 5 81 266 84 278 1.02e-63 204
MsaG002512 AT2G22800.1 77.049 122 28 0 143 264 104 225 1.26e-63 202
MsaG002512 AT2G01430.1 50.000 172 68 4 102 264 87 249 1.79e-44 152
MsaG002512 AT1G70920.1 59.124 137 42 4 142 274 57 183 4.12e-41 142
MsaG002512 AT1G70920.2 59.124 137 42 4 142 274 27 153 4.73e-41 140
MsaG002512 AT5G06710.4 42.308 260 74 9 1 203 1 241 1.01e-40 143
MsaG002512 AT5G06710.2 36.481 233 72 9 1 176 1 214 1.29e-20 89.0
MsaG002512 AT5G06710.3 36.481 233 72 9 1 176 1 214 1.29e-20 89.0
MsaG002512 AT2G01430.2 45.045 111 45 2 102 203 87 190 1.96e-20 87.8
MsaG002512 AT1G69780.1 44.340 106 59 0 134 239 67 172 3.48e-18 83.2
MsaG002512 AT1G26960.1 44.860 107 55 1 144 246 63 169 8.10e-18 81.6
MsaG002512 AT5G03790.1 39.130 115 69 1 145 258 70 184 2.16e-17 80.1
MsaG002512 AT2G36610.1 41.176 102 52 1 147 240 66 167 1.69e-16 76.6
MsaG002512 AT5G15150.1 43.590 117 61 3 130 241 92 208 7.34e-16 77.0
MsaG002512 AT3G01220.1 44.330 97 50 1 152 244 87 183 3.15e-15 74.7
MsaG002512 AT2G22430.1 45.455 99 50 1 148 242 58 156 4.06e-15 74.7
MsaG002512 AT3G01470.1 44.565 92 51 0 152 243 68 159 4.53e-15 74.3
MsaG002512 AT1G27045.5 57.576 66 28 0 152 217 25 90 1.66e-14 70.9
MsaG002512 AT1G27045.3 57.576 66 28 0 152 217 25 90 1.66e-14 70.9
MsaG002512 AT1G27045.2 57.576 66 28 0 152 217 17 82 1.71e-14 70.9
MsaG002512 AT1G27045.1 57.576 66 28 0 152 217 68 133 2.44e-14 71.2
MsaG002512 AT4G40060.1 43.878 98 51 1 148 241 55 152 2.54e-14 72.4
MsaG002512 AT5G65310.2 41.837 98 50 1 149 239 51 148 3.66e-14 72.0
MsaG002512 AT5G65310.1 41.837 98 50 1 149 239 69 166 3.75e-14 72.0
MsaG002512 AT1G27045.4 57.576 66 28 0 152 217 68 133 4.32e-14 71.2
MsaG002512 AT5G03790.2 35.772 123 71 2 145 259 70 192 6.03e-14 69.7
MsaG002512 AT2G18550.1 44.554 101 54 2 138 238 49 147 1.20e-13 69.3
MsaG002512 AT2G46680.2 40.659 91 54 0 147 237 27 117 6.47e-13 67.8
MsaG002512 AT2G46680.1 40.659 91 54 0 147 237 27 117 6.68e-13 67.8
MsaG002512 AT4G36740.1 41.237 97 56 1 142 238 46 141 4.42e-12 64.7
MsaG002512 AT4G36740.2 41.237 97 56 1 142 238 47 142 4.44e-12 64.7
MsaG002512 AT3G61890.1 40.964 83 49 0 155 237 33 115 7.50e-11 61.6

Find 74 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGCTTGAGCCTGATGGGCT+TGG 0.185004 1:-42514777 None:intergenic
GGCTTGAGCCTGATGGGCTT+GGG 0.249675 1:-42514776 None:intergenic
AGGAATAACAATGCTGAATA+TGG 0.265099 1:+42513641 MsaT002512.1:CDS
AGAAAAGAGATAGGTAATTT+TGG 0.282658 1:-42512939 None:intergenic
GGAAGTGATGATGATGAAAA+TGG 0.308043 1:+42513704 MsaT002512.1:CDS
CTTCTCACCTCCCCATTCCT+TGG 0.329294 1:+42513105 MsaT002512.1:CDS
GAAACTTGGTAGTGGATCTT+TGG 0.333786 1:-42512973 None:intergenic
GGCTTGGGCTTGAGCCTGAT+GGG 0.342578 1:-42514782 None:intergenic
ACGTCTTCGGTCGTCGCCGC+CGG 0.354769 1:-42513551 None:intergenic
GGGCTTGGGCTTGAGCCTGA+TGG 0.356666 1:-42514783 None:intergenic
TTGACTTGTTGGTGTTTGTT+TGG 0.360920 1:-42514726 None:intergenic
ATGGAACTTGCTTTGAGCTT+AGG 0.368374 1:+42512909 MsaT002512.1:CDS
GGAAGAAGGTCTAGTTGAAT+AGG 0.392211 1:-42513050 None:intergenic
GTCCTCGTCAAGTTGAAGTT+TGG 0.396562 1:+42513944 MsaT002512.1:CDS
GCTAGACGTGAACCGTTTCC+CGG 0.397577 1:+42513532 MsaT002512.1:CDS
TGCTCAAGCCCAAGCCCATC+AGG 0.400227 1:+42514768 MsaT002512.1:CDS
CGGTCGTCGCCGCCGGGAAA+CGG 0.408106 1:-42513544 None:intergenic
ATGAAGGAATCTGATGGGCT+TGG 0.420734 1:-42514798 None:intergenic
GGTTGGGTGAGCCAAGGAAT+GGG 0.421883 1:-42513116 None:intergenic
TGGCAGTATTCTTGACTTGT+TGG 0.444669 1:-42514737 None:intergenic
TAGATAGAAAATTACATGGT+TGG 0.446528 1:-42513133 None:intergenic
TGAAGGAATCTGATGGGCTT+GGG 0.452845 1:-42514797 None:intergenic
TTGCAATGGATTTCAGTATG+AGG 0.457926 1:+42513621 MsaT002512.1:CDS
GTGTTTGTTTGGTTGTTGCA+AGG 0.458788 1:-42514715 None:intergenic
AGATAGAAAATTACATGGTT+GGG 0.461778 1:-42513132 None:intergenic
GGTGCCGTCGTCGACGTCTT+CGG 0.477232 1:-42513564 None:intergenic
TTCTGTGTCACCATTTGCAA+TGG 0.477662 1:+42513607 MsaT002512.1:CDS
CACATAGTGAGAGTGGTAGC+TGG 0.479169 1:-42514664 None:intergenic
GGGTGAGGAGATCTAAGAAC+AGG 0.479275 1:-42513080 None:intergenic
GGAATGGGGAGGTGAGAAGA+AGG 0.480630 1:-42513101 None:intergenic
CTTGGTAGTGGATCTTTGGT+GGG 0.487093 1:-42512969 None:intergenic
TGTTTGTTTGGTTGTTGCAA+GGG 0.493080 1:-42514714 None:intergenic
ATACTGAAATCCATTGCAAA+TGG 0.496930 1:-42513617 None:intergenic
GATCTAAGAACAGGAGAGAA+AGG 0.503681 1:-42513071 None:intergenic
CGTCTTCGGTCGTCGCCGCC+GGG 0.504881 1:-42513550 None:intergenic
TGGTTGGGTGAGCCAAGGAA+TGG 0.507151 1:-42513117 None:intergenic
AGAAACAAGAGAGAAAATGA+AGG 0.510237 1:+42513668 MsaT002512.1:CDS
ACTTGGTAGTGGATCTTTGG+TGG 0.512252 1:-42512970 None:intergenic
ATCATCAGGTGGACCGGTGA+GGG 0.515305 1:+42513508 MsaT002512.1:intron
AATGAAGGTGAAGCTGAAAG+AGG 0.521199 1:+42513683 MsaT002512.1:CDS
TTTGTTATCATCAGGTGGAC+CGG 0.521239 1:+42513502 MsaT002512.1:intron
GAATGGGGAGGTGAGAAGAA+GGG 0.522886 1:-42513100 None:intergenic
TGGGCTTGAGCATTAGAGAA+TGG 0.523806 1:-42514757 None:intergenic
GAAGTGATGATGATGAAAAT+GGG 0.525282 1:+42513705 MsaT002512.1:CDS
GGGAGGTGAGAAGAAGGGTG+AGG 0.527359 1:-42513095 None:intergenic
AAATGGTGACACAGAACTGC+TGG 0.531470 1:-42513600 None:intergenic
TGTTGGGTTGAGAAGAAACT+TGG 0.533644 1:-42512987 None:intergenic
GTTGCTACACGTTCACAAGA+AGG 0.535467 1:-42514688 None:intergenic
ATGATGAAAATGGGTCAACT+AGG 0.551419 1:+42513714 MsaT002512.1:CDS
GGTTTGTCGAGAAAAGAGAT+AGG 0.552098 1:-42512948 None:intergenic
GAACAGGAGAGAAAGGAAGA+AGG 0.553836 1:-42513064 None:intergenic
AAGGTCATGAAGGAATCTGA+TGG 0.569756 1:-42514804 None:intergenic
GTTGAGAAGAAACTTGGTAG+TGG 0.575951 1:-42512981 None:intergenic
GAAATTTACAGGATTAAGAG+TGG 0.579010 1:-42513798 None:intergenic
AAAGCTAAAGCAAACAGAAG+TGG 0.588208 1:+42514525 MsaT002512.1:CDS
GCTGGAAGTTGCATGTAGAA+TGG 0.591856 1:-42514646 None:intergenic
ATAAGATTATAAGGTCATGA+AGG 0.594650 1:-42514814 None:intergenic
AGAAGGTCTAGTTGAATAGG+TGG 0.598462 1:-42513047 None:intergenic
AGAAGGACACATAGTGAGAG+TGG 0.600200 1:-42514671 None:intergenic
GGTTTCAAAATAGAAGAGCA+AGG 0.607323 1:+42513965 MsaT002512.1:CDS
AATGGTGACACAGAACTGCT+GGG 0.607777 1:-42513599 None:intergenic
AGTTTCTTCTCAACCCAACA+AGG 0.609680 1:+42512990 MsaT002512.1:CDS
TTACATGGTTGGGTGAGCCA+AGG 0.611815 1:-42513122 None:intergenic
TTCACGTCTAGCTCCCTCAC+CGG 0.612339 1:-42513521 None:intergenic
AGGTCATGAAGGAATCTGAT+GGG 0.612514 1:-42514803 None:intergenic
AATAACAATGCTGAATATGG+AGG 0.617867 1:+42513644 MsaT002512.1:CDS
AACCAAACTTCAACTTGACG+AGG 0.618703 1:-42513946 None:intergenic
GTTGGGTGAGCCAAGGAATG+GGG 0.619312 1:-42513115 None:intergenic
TATCATCAGGTGGACCGGTG+AGG 0.627118 1:+42513507 MsaT002512.1:intron
ACGACCGAAGACGTCGACGA+CGG 0.639103 1:+42513560 MsaT002512.1:CDS
ATGGTGACACAGAACTGCTG+GGG 0.640069 1:-42513598 None:intergenic
GGGTGAGCCAAGGAATGGGG+AGG 0.690782 1:-42513112 None:intergenic
AGACGTGAACCGTTTCCCGG+CGG 0.739526 1:+42513535 MsaT002512.1:CDS
TGGTGACACAGAACTGCTGG+GGG 0.743324 1:-42513597 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 42512909 42514822 42512909 ID=MsaG002512
Chr1 mRNA 42512909 42514822 42512909 ID=MsaT002512.1;Parent=MsaG002512
Chr1 exon 42512909 42513140 42512909 ID=MsaT002512.1.exon1;Parent=MsaT002512.1
Chr1 CDS 42512909 42513140 42512909 ID=cds.MsaT002512.1;Parent=MsaT002512.1
Chr1 exon 42513516 42513811 42513516 ID=MsaT002512.1.exon2;Parent=MsaT002512.1
Chr1 CDS 42513516 42513811 42513516 ID=cds.MsaT002512.1;Parent=MsaT002512.1
Chr1 exon 42513907 42513986 42513907 ID=MsaT002512.1.exon3;Parent=MsaT002512.1
Chr1 CDS 42513907 42513986 42513907 ID=cds.MsaT002512.1;Parent=MsaT002512.1
Chr1 exon 42514522 42514822 42514522 ID=MsaT002512.1.exon4;Parent=MsaT002512.1
Chr1 CDS 42514522 42514822 42514522 ID=cds.MsaT002512.1;Parent=MsaT002512.1
Gene Sequence

>MsaT002512.1

ATGGAACTTGCTTTGAGCTTAGGTGACACACCAAAATTACCTATCTCTTTTCTCGACAAACCCACCAAAGATCCACTACCAAGTTTCTTCTCAACCCAACAAGGAAAAGCTTCAGAAGAAAAAAGAGGTTCTTCAGATCCACCTATTCAACTAGACCTTCTTCCTTTCTCTCCTGTTCTTAGATCTCCTCACCCTTCTTCTCACCTCCCCATTCCTTGGCTCACCCAACCATGTGGACCGGTGAGGGAGCTAGACGTGAACCGTTTCCCGGCGGCGACGACCGAAGACGTCGACGACGGCACCTCATTGTCATCCCCCAGCAGTTCTGTGTCACCATTTGCAATGGATTTCAGTATGAGGAATAACAATGCTGAATATGGAGGAAGAAACAAGAGAGAAAATGAAGGTGAAGCTGAAAGAGGAAGTGATGATGATGAAAATGGGTCAACTAGGAAGAAACTAAGACTCTCTAAAGATCAATCTGCTTTTCTTGAAGAAAGTTTCAAAGAACACACCACTCTTAATCCTAAGCAAAAACTTGCACTGGCAAAACAGTTGAATCTTAGTCCTCGTCAAGTTGAAGTTTGGTTTCAAAATAGAAGAGCAAGGACAAAGCTAAAGCAAACAGAAGTGGATTGTGAGTATTTGAAGAGATGTTGTGAGACACTAACAGAAGAAAATAGAAGATTACAAAAAGAACTTCAAGAGCTTAGAGCTTTGAAAACTACTCAACCATTCTACATGCAACTTCCAGCTACCACTCTCACTATGTGTCCTTCTTGTGAACGTGTAGCAACAAACCCTTGCAACAACCAAACAAACACCAACAAGTCAAGAATACTGCCATTCTCTAATGCTCAAGCCCAAGCCCATCAGGCTCAAGCCCAAGCCCATCAGATTCCTTCATGA
Protein sequence

>MsaT002512.1

MELALSLGDTPKLPISFLDKPTKDPLPSFFSTQQGKASEEKRGSSDPPIQLDLLPFSPVLRSPHPSSHLPIPWLTQPCGPVRELDVNRFPAATTEDVDDGTSLSSPSSSVSPFAMDFSMRNNNAEYGGRNKRENEGEAERGSDDDENGSTRKKLRLSKDQSAFLEESFKEHTTLNPKQKLALAKQLNLSPRQVEVWFQNRRARTKLKQTEVDCEYLKRCCETLTEENRRLQKELQELRALKTTQPFYMQLPATTLTMCPSCERVATNPCNNQTNTNKSRILPFSNAQAQAHQAQAQAHQIPS*