AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000425


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000425 MtrunA17_Chr1g0151971 94.170 223 11 2 1 222 50 271 5.72e-150 418
MsaG000425 MtrunA17_Chr4g0054421 72.308 130 32 2 69 196 112 239 3.63e-61 192
MsaG000425 MtrunA17_Chr5g0400781 63.871 155 44 4 75 223 115 263 2.92e-60 190
MsaG000425 MtrunA17_Chr1g0175651 70.079 127 36 1 70 196 142 266 9.48e-59 187
MsaG000425 MtrunA17_Chr7g0258831 69.919 123 35 1 75 197 153 273 2.71e-57 183
MsaG000425 MtrunA17_Chr5g0399491 51.892 185 75 5 40 222 96 268 1.85e-54 176
MsaG000425 MtrunA17_Chr4g0055851 52.778 180 68 5 40 218 85 248 1.17e-53 173
MsaG000425 MtrunA17_Chr3g0135331 51.064 235 95 8 2 222 61 289 1.20e-53 174
MsaG000425 MtrunA17_Chr2g0308611 71.552 116 31 1 81 196 199 312 2.41e-53 174
MsaG000425 MtrunA17_Chr8g0335131 69.565 115 32 2 81 194 145 257 1.11e-50 166
MsaG000425 MtrunA17_Chr4g0044091 47.674 172 67 5 36 194 20 181 1.42e-42 142
MsaG000425 MtrunA17_Chr2g0299031 49.032 155 75 3 46 200 49 199 1.36e-37 130
MsaG000425 MtrunA17_Chr4g0071411 59.292 113 44 2 84 194 90 202 4.22e-35 124
MsaG000425 MtrunA17_Chr6g0450991 51.648 91 44 0 79 169 64 154 1.32e-21 90.5
MsaG000425 MtrunA17_Chr7g0217111 42.991 107 54 1 81 180 79 185 8.40e-19 82.4
MsaG000425 MtrunA17_Chr7g0265521 41.346 104 61 0 66 169 47 150 9.03e-19 81.6
MsaG000425 MtrunA17_Chr8g0381741 44.628 121 56 3 56 169 32 148 3.99e-18 81.3
MsaG000425 MtrunA17_Chr3g0119291 46.078 102 46 2 77 169 52 153 7.28e-18 79.7
MsaG000425 MtrunA17_Chr5g0416391 43.434 99 54 1 73 169 66 164 7.81e-18 80.1
MsaG000425 MtrunA17_Chr8g0362151 40.678 118 59 2 54 169 56 164 2.44e-17 78.6
MsaG000425 MtrunA17_Chr3g0123691 47.368 95 43 1 82 169 60 154 2.78e-17 79.0
MsaG000425 MtrunA17_Chr8g0362751 46.875 96 44 1 80 168 87 182 6.40e-17 77.8
MsaG000425 MtrunA17_Chr1g0179581 44.944 89 49 0 76 164 22 110 7.56e-17 73.6
MsaG000425 MtrunA17_Chr4g0060031 48.864 88 45 0 82 169 95 182 1.32e-16 77.4
MsaG000425 MtrunA17_Chr6g0453021 47.872 94 42 1 82 168 96 189 1.89e-16 76.3
MsaG000425 MtrunA17_Chr5g0415941 45.263 95 45 1 82 169 87 181 1.27e-15 74.3
MsaG000425 MtrunA17_Chr5g0403691 45.882 85 46 0 82 166 53 137 1.20e-11 62.0
MsaG000425 MtrunA17_Chr3g0127511 41.935 93 47 1 85 170 41 133 1.22e-11 62.4
MsaG000425 MtrunA17_Chr5g0410711 34.375 128 72 2 41 167 61 177 1.67e-11 63.2
MsaG000425 MtrunA17_Chr5g0403701 49.296 71 36 0 82 152 53 123 4.17e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000425 AT5G06710.1 56.425 179 63 5 40 209 140 312 9.80e-60 191
MsaG000425 AT4G37790.1 73.984 123 29 2 75 196 118 238 2.25e-59 188
MsaG000425 AT2G22800.1 72.358 123 31 2 75 196 105 225 1.99e-56 181
MsaG000425 AT4G16780.1 59.589 146 48 4 75 218 121 257 1.38e-52 171
MsaG000425 AT3G60390.1 66.667 123 40 1 72 194 152 273 6.80e-52 170
MsaG000425 AT5G47370.1 46.544 217 91 7 16 221 54 256 3.25e-50 165
MsaG000425 AT2G44910.1 68.376 117 34 2 81 196 162 276 8.80e-50 165
MsaG000425 AT4G17460.1 64.407 118 41 1 81 198 134 250 8.79e-47 156
MsaG000425 AT2G01430.1 46.584 161 73 5 45 196 93 249 1.37e-39 137
MsaG000425 AT1G70920.2 46.667 150 67 2 57 204 14 152 1.46e-35 124
MsaG000425 AT1G70920.1 46.667 150 67 2 57 204 44 182 1.47e-35 125
MsaG000425 AT5G06710.4 54.369 103 37 3 40 133 140 241 1.88e-24 98.2
MsaG000425 AT2G01430.2 46.465 99 44 3 44 133 92 190 1.19e-20 86.7
MsaG000425 AT3G01470.1 46.316 95 44 1 80 167 66 160 3.41e-18 81.3
MsaG000425 AT1G69780.1 44.444 99 53 1 73 169 74 172 4.89e-17 78.6
MsaG000425 AT1G26960.1 46.316 95 49 1 77 169 64 158 7.86e-17 77.4
MsaG000425 AT5G15150.1 38.462 143 75 3 73 204 102 242 2.21e-16 77.0
MsaG000425 AT2G22430.1 37.956 137 72 3 46 172 23 156 2.36e-16 76.6
MsaG000425 AT4G40060.1 42.857 105 56 1 72 172 49 153 6.46e-16 75.5
MsaG000425 AT5G65310.1 43.434 99 49 1 82 173 72 170 1.46e-15 74.7
MsaG000425 AT5G65310.2 43.434 99 49 1 82 173 54 152 1.55e-15 74.3
MsaG000425 AT1G27045.1 50.000 88 44 0 82 169 68 155 1.82e-15 73.2
MsaG000425 AT1G27045.4 50.000 88 44 0 82 169 68 155 2.74e-15 73.2
MsaG000425 AT1G27045.5 50.000 88 44 0 82 169 25 112 3.14e-15 71.6
MsaG000425 AT1G27045.3 50.000 88 44 0 82 169 25 112 3.14e-15 71.6
MsaG000425 AT1G27045.2 57.576 66 28 0 82 147 17 82 3.37e-15 71.2
MsaG000425 AT3G01220.1 41.667 108 52 2 73 169 74 181 1.29e-14 71.6
MsaG000425 AT2G36610.1 41.176 102 52 1 77 170 66 167 1.73e-14 69.7
MsaG000425 AT5G03790.1 40.449 89 53 0 82 170 77 165 7.98e-14 68.6
MsaG000425 AT5G03790.2 36.207 116 68 2 82 191 77 192 7.21e-13 65.5
MsaG000425 AT2G46680.2 42.353 85 49 0 85 169 35 119 7.47e-13 66.2
MsaG000425 AT2G46680.1 42.353 85 49 0 85 169 35 119 8.76e-13 66.2
MsaG000425 AT2G18550.1 37.864 103 63 1 66 168 46 147 1.28e-11 62.4
MsaG000425 AT4G36740.2 39.080 87 53 0 82 168 56 142 5.15e-11 60.5
MsaG000425 AT4G36740.1 39.080 87 53 0 82 168 55 141 5.51e-11 60.5

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTGGAATCTTCATATAAA+AGG 0.190194 1:-5682669 None:intergenic
TCTTCACTCTCTTCCTTTGA+TGG 0.194879 1:-5680883 None:intergenic
ACATTTCCTATCCTTGTAAT+TGG 0.209590 1:-5681066 None:intergenic
CCCTCAACAACATTGCTTAC+TGG 0.286571 1:+5682755 MsaT000425.1:CDS
GTGAGCCTAAGTTTCTTCCT+TGG 0.317530 1:-5681105 None:intergenic
AAAACAACAATCAGAAGTTT+TGG 0.327778 1:+5681128 MsaT000425.1:CDS
TGAGCCTAAGTTTCTTCCTT+GGG 0.367322 1:-5681104 None:intergenic
GGAGAGTGGTGAGGAATTTG+AGG 0.383101 1:+5681026 MsaT000425.1:CDS
ACCACTCTCCTTCCTGATGC+TGG 0.385112 1:-5681013 None:intergenic
GCTTATCCAATGCTTACATT+AGG 0.396378 1:+5680859 None:intergenic
TAGAGGTGTGGTTTCAAAAT+CGG 0.417824 1:+5681946 MsaT000425.1:CDS
TTTCAAATTCCACCAGCATC+AGG 0.453960 1:+5681001 MsaT000425.1:CDS
AGCAAATAAGCTGAATCTGC+AGG 0.462898 1:+5681914 MsaT000425.1:CDS
CCTTCGTGCGAGACAATTTG+TGG 0.481936 1:+5682710 MsaT000425.1:CDS
AAGCAATGTTGTTGAGGGTA+AGG 0.487754 1:-5682750 None:intergenic
GCTGGAATCTTCATATAAAA+GGG 0.492378 1:-5682668 None:intergenic
ATAGGAAATGTTGATAAAGA+TGG 0.494478 1:+5681078 MsaT000425.1:CDS
GATGGTCCTAATGTAAGCAT+TGG 0.505729 1:-5680865 None:intergenic
GGTTTCAAAATCGGAGAGCC+AGG 0.511878 1:+5681955 MsaT000425.1:CDS
GGAGAACAAGAAGTTGCAAA+AGG 0.515455 1:+5682604 MsaT000425.1:CDS
CCAGTAAGCAATGTTGTTGA+GGG 0.519543 1:-5682755 None:intergenic
CACAAATTGTCTCGCACGAA+GGG 0.524067 1:-5682709 None:intergenic
AGAGCATTCTACTCTTAATC+CGG 0.524461 1:+5681164 MsaT000425.1:CDS
AAGGTGCCAATTACAAGGAT+AGG 0.527337 1:+5681060 MsaT000425.1:CDS
GCCAGTAAGCAATGTTGTTG+AGG 0.532003 1:-5682756 None:intergenic
CAGAACAAAGCTGAAACAAA+CGG 0.533275 1:+5682535 MsaT000425.1:intron
ATTTGAGGTAGAGATAGAAA+AGG 0.543575 1:+5681041 MsaT000425.1:CDS
ACTCTCCTTCCTGATGCTGG+TGG 0.545711 1:-5681010 None:intergenic
TAGAAAAGGTGCCAATTACA+AGG 0.547476 1:+5681055 MsaT000425.1:CDS
GTAGCCCAAGGAAGAAACTT+AGG 0.555898 1:+5681100 MsaT000425.1:CDS
CTTGCAGAAGTAAATTGAGT+AGG 0.581739 1:-5680964 None:intergenic
GCTTACATTAGGACCATCAA+AGG 0.583436 1:+5680870 MsaT000425.1:CDS
TGTCTCGCACGAAGGGCAGA+TGG 0.584824 1:-5682702 None:intergenic
ATTTGTGGTGGCAACAACAA+TGG 0.596806 1:+5682725 MsaT000425.1:CDS
CAGATGGTAAGTGTTGCTGC+TGG 0.599263 1:-5682686 None:intergenic
ACAACATTCAACATCAAAGA+CGG 0.613762 1:+5680921 MsaT000425.1:CDS
AAATTCCACCAGCATCAGGA+AGG 0.618266 1:+5681005 MsaT000425.1:CDS
TCTGCAGGCTAGACAAGTAG+AGG 0.619659 1:+5681929 MsaT000425.1:CDS
TTGATAAAGATGGTAGCCCA+AGG 0.634722 1:+5681088 MsaT000425.1:CDS
TCGTGCGAGACAATTTGTGG+TGG 0.644683 1:+5682713 MsaT000425.1:CDS
ACCAGCATCAGGAAGGAGAG+TGG 0.645786 1:+5681012 MsaT000425.1:CDS
GTGTTGCGAATCTCTAACAG+AGG 0.648660 1:+5682583 MsaT000425.1:CDS
CCACAAATTGTCTCGCACGA+AGG 0.651452 1:-5682710 None:intergenic
CATCAGGAAGGAGAGTGGTG+AGG 0.670590 1:+5681017 MsaT000425.1:CDS
AGGCTAGACAAGTAGAGGTG+TGG 0.674713 1:+5681934 MsaT000425.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 5680868 5682817 5680868 ID=MsaG000425
Chr1 mRNA 5680868 5682817 5680868 ID=MsaT000425.1;Parent=MsaG000425
Chr1 exon 5680868 5681185 5680868 ID=MsaT000425.1.exon1;Parent=MsaT000425.1
Chr1 CDS 5680868 5681185 5680868 ID=cds.MsaT000425.1;Parent=MsaT000425.1
Chr1 exon 5681897 5681976 5681897 ID=MsaT000425.1.exon2;Parent=MsaT000425.1
Chr1 CDS 5681897 5681976 5681897 ID=cds.MsaT000425.1;Parent=MsaT000425.1
Chr1 exon 5682538 5682817 5682538 ID=MsaT000425.1.exon3;Parent=MsaT000425.1
Chr1 CDS 5682538 5682817 5682538 ID=cds.MsaT000425.1;Parent=MsaT000425.1
Gene Sequence

>MsaT000425.1

ATGCTTACATTAGGACCATCAAAGGAAGAGAGTGAAGAAAATACTAAAATTCAACAACATTCAACATCAAAGACGGAATCTTGTGATCAAAATTTACCTACTCAATTTACTTCTGCAAGCATAGAGTCTTCATTTTCAAATTCCACCAGCATCAGGAAGGAGAGTGGTGAGGAATTTGAGGTAGAGATAGAAAAGGTGCCAATTACAAGGATAGGAAATGTTGATAAAGATGGTAGCCCAAGGAAGAAACTTAGGCTCACAAAACAACAATCAGAAGTTTTGGAGGAAAACTTCAAAGAGCATTCTACTCTTAATCCGAAGCAAAAGCAAGCATTAGCAAATAAGCTGAATCTGCAGGCTAGACAAGTAGAGGTGTGGTTTCAAAATCGGAGAGCCAGAACAAAGCTGAAACAAACGGAATCTGATTGTGAAATACTGAAGAAGTGTTGCGAATCTCTAACAGAGGAGAACAAGAAGTTGCAAAAGGAGCTACAAGAACTAAAGTCAATGCAAACAGTAGCAGCAGCACCCTTTTATATGAAGATTCCAGCAGCAACACTTACCATCTGCCCTTCGTGCGAGACAATTTGTGGTGGCAACAACAATGGCTCCTTACCCTCAACAACATTGCTTACTGGCTCAAAGAATCATCATTTCCATAAAAACTTTTTGGTTTGA

Protein sequence

>MsaT000425.1

MLTLGPSKEESEENTKIQQHSTSKTESCDQNLPTQFTSASIESSFSNSTSIRKESGEEFEVEIEKVPITRIGNVDKDGSPRKKLRLTKQQSEVLEENFKEHSTLNPKQKQALANKLNLQARQVEVWFQNRRARTKLKQTESDCEILKKCCESLTEENKKLQKELQELKSMQTVAAAPFYMKIPAATLTICPSCETICGGNNNGSLPSTTLLTGSKNHHFHKNFLV*