AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001402

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001402 MtrunA17_Chr6g0481091 32.911 158 82 7 4 146 6 154 2.44e-18 80.5
MsaG001402 MtrunA17_Chr4g0056541 35.032 157 79 7 4 146 7 154 1.90e-17 79.7
MsaG001402 MtrunA17_Chr5g0398971 33.333 159 81 8 4 146 7 156 2.75e-17 79.0
MsaG001402 MtrunA17_Chr1g0147421 33.333 156 87 6 2 146 25 174 4.98e-17 78.6
MsaG001402 MtrunA17_Chr4g0050701 31.013 158 85 7 4 147 11 158 2.30e-16 73.9
MsaG001402 MtrunA17_Chr7g0263931 29.293 198 119 7 4 193 11 195 2.43e-16 76.3
MsaG001402 MtrunA17_Chr5g0417791 30.625 160 85 6 4 146 3 153 2.54e-16 75.5
MsaG001402 MtrunA17_Chr5g0405211 32.468 154 87 5 4 146 8 155 2.55e-16 76.3
MsaG001402 MtrunA17_Chr3g0109821 33.125 160 80 7 4 146 6 155 2.58e-16 77.0
MsaG001402 MtrunA17_Chr4g0018391 33.758 157 81 7 4 146 7 154 3.60e-16 75.9
MsaG001402 MtrunA17_Chr1g0200561 31.288 163 92 6 1 149 13 169 5.09e-16 75.5
MsaG001402 MtrunA17_Chr4g0042561 30.625 160 85 7 4 146 9 159 2.62e-15 72.8
MsaG001402 MtrunA17_Chr2g0309891 30.573 157 88 7 4 146 6 155 3.60e-15 73.2
MsaG001402 MtrunA17_Chr2g0326361 31.447 159 85 6 4 145 14 165 4.13e-15 72.8
MsaG001402 MtrunA17_Chr2g0318101 29.341 167 87 5 4 146 15 174 8.28e-15 72.0
MsaG001402 MtrunA17_Chr8g0359921 32.075 159 82 7 4 146 14 162 1.04e-14 71.6
MsaG001402 MtrunA17_Chr3g0128111 29.282 181 90 10 7 168 45 206 1.15e-14 70.5
MsaG001402 MtrunA17_Chr2g0318081 31.847 157 83 7 4 146 16 162 1.75e-14 71.2
MsaG001402 MtrunA17_Chr3g0139331 31.410 156 89 6 2 146 9 157 1.80e-14 71.2
MsaG001402 MtrunA17_Chr5g0428991 30.909 165 82 9 1 146 22 173 2.29e-14 71.2
MsaG001402 MtrunA17_Chr7g0266701 28.485 165 96 7 1 146 1 162 2.29e-14 70.1
MsaG001402 MtrunA17_Chr4g0047841 33.088 136 78 4 4 133 15 143 2.55e-14 70.5
MsaG001402 MtrunA17_Chr8g0345731 30.968 155 93 5 2 145 22 173 2.83e-14 68.2
MsaG001402 MtrunA17_Chr6g0484441 31.818 154 85 6 4 146 5 149 5.41e-14 69.7
MsaG001402 MtrunA17_Chr6g0453131 28.814 177 94 7 1 154 12 179 9.42e-14 69.3
MsaG001402 MtrunA17_Chr3g0130101 30.818 159 86 6 3 146 6 155 1.65e-13 68.6
MsaG001402 MtrunA17_Chr8g0361731 27.976 168 90 7 2 146 12 171 2.62e-13 67.8
MsaG001402 MtrunA17_Chr8g0345671 28.421 190 115 8 4 182 11 190 3.03e-13 67.8
MsaG001402 MtrunA17_Chr1g0201021 32.653 147 79 6 6 144 21 155 3.11e-13 68.2
MsaG001402 MtrunA17_Chr3g0124761 30.000 160 86 6 4 147 7 156 4.43e-13 66.6
MsaG001402 MtrunA17_Chr4g0054791 29.744 195 112 11 4 183 6 190 1.03e-12 65.9
MsaG001402 MtrunA17_Chr3g0144271 29.530 149 91 5 4 145 23 164 1.44e-12 65.9
MsaG001402 MtrunA17_Chr1g0197361 28.205 156 90 7 6 147 10 157 6.16e-12 64.3
MsaG001402 MtrunA17_Chr4g0038751 31.126 151 86 7 6 146 17 159 7.14e-12 63.2
MsaG001402 MtrunA17_Chr1g0197351 32.099 162 84 6 4 146 42 196 7.62e-12 63.9
MsaG001402 MtrunA17_Chr3g0092671 27.273 154 94 6 6 147 7 154 2.10e-11 62.8
MsaG001402 MtrunA17_Chr8g0384201 29.560 159 86 7 4 146 6 154 3.99e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001402 AT3G17730.1 33.544 158 81 8 4 146 6 154 7.57e-19 82.4
MsaG001402 AT2G24430.2 36.306 157 81 6 2 146 14 163 1.20e-18 82.8
MsaG001402 AT2G24430.1 36.306 157 81 6 2 146 14 163 1.20e-18 82.8
MsaG001402 AT2G27300.1 30.061 163 97 5 4 162 14 163 3.59e-18 81.6
MsaG001402 AT1G12260.2 36.306 157 77 8 4 146 7 154 6.04e-18 81.3
MsaG001402 AT1G12260.1 36.306 157 77 8 4 146 7 154 1.06e-17 80.9
MsaG001402 AT5G62380.2 32.143 196 91 9 4 168 7 191 2.08e-17 79.7
MsaG001402 AT5G62380.1 32.143 196 91 9 4 168 7 191 2.08e-17 79.7
MsaG001402 AT3G44290.2 29.167 144 92 4 6 145 16 153 5.44e-17 77.0
MsaG001402 AT3G10490.1 33.758 157 83 6 4 146 27 176 7.01e-17 77.0
MsaG001402 AT1G62700.1 34.395 157 80 7 4 146 7 154 7.34e-17 78.6
MsaG001402 AT1G62700.2 34.395 157 80 7 4 146 7 154 7.34e-17 78.6
MsaG001402 AT4G36160.2 32.468 154 87 5 4 146 14 161 7.40e-17 78.6
MsaG001402 AT4G36160.1 32.468 154 87 5 4 146 10 157 8.23e-17 78.2
MsaG001402 AT4G36160.3 32.468 154 87 5 4 146 10 157 8.23e-17 78.2
MsaG001402 AT1G76420.1 32.075 159 83 6 4 147 22 170 1.09e-16 77.8
MsaG001402 AT1G71930.2 31.210 157 91 5 4 149 9 159 2.08e-16 76.6
MsaG001402 AT1G71930.1 31.210 157 91 5 4 149 9 159 2.08e-16 76.6
MsaG001402 AT3G44290.1 29.167 144 92 4 6 145 16 153 2.22e-16 76.6
MsaG001402 AT4G27410.2 32.099 162 86 7 4 151 14 165 2.25e-16 76.3
MsaG001402 AT3G10490.2 33.758 157 83 6 4 146 27 176 4.08e-16 76.6
MsaG001402 AT1G65910.1 32.704 159 81 7 4 146 6 154 4.98e-16 76.6
MsaG001402 AT2G18060.3 31.818 154 88 5 4 146 9 156 5.67e-16 75.9
MsaG001402 AT2G18060.1 31.818 154 88 5 4 146 9 156 5.67e-16 75.9
MsaG001402 AT5G22290.1 31.034 145 89 5 6 145 23 161 6.42e-16 75.5
MsaG001402 AT3G10480.1 33.758 157 83 6 4 146 27 176 7.77e-16 75.9
MsaG001402 AT4G17980.1 31.056 161 83 6 4 145 6 157 1.12e-15 73.9
MsaG001402 AT4G17980.2 30.864 162 84 6 3 145 5 157 1.37e-15 73.9
MsaG001402 AT4G27410.3 30.114 176 88 7 4 151 14 182 3.26e-15 73.2
MsaG001402 AT3G10480.2 33.333 156 84 6 4 146 27 175 3.83e-15 73.9
MsaG001402 AT1G69490.1 30.000 160 86 6 4 146 9 159 4.07e-15 72.4
MsaG001402 AT5G17260.1 30.380 158 87 7 4 146 6 155 4.49e-15 73.6
MsaG001402 AT5G66300.1 31.646 158 84 7 4 146 12 160 5.07e-15 72.4
MsaG001402 AT1G26870.1 29.508 183 96 6 2 162 14 185 5.26e-15 73.2
MsaG001402 AT1G33280.1 32.000 175 91 9 4 165 8 167 8.72e-15 72.0
MsaG001402 AT1G54330.1 30.719 153 89 6 4 146 6 151 1.30e-14 71.6
MsaG001402 AT5G39610.1 31.646 158 84 7 4 146 20 168 1.40e-14 71.2
MsaG001402 AT5G24590.2 30.435 161 83 8 4 146 13 162 3.30e-14 71.2
MsaG001402 AT3G10500.1 32.692 156 85 6 4 146 9 157 4.05e-14 70.9
MsaG001402 AT5G08790.1 29.817 218 113 10 4 197 7 208 5.43e-14 69.7
MsaG001402 AT2G02450.1 30.233 172 99 6 3 162 50 212 1.12e-13 69.3
MsaG001402 AT3G15500.1 31.250 160 80 7 4 146 14 160 1.15e-13 68.9
MsaG001402 AT3G29035.1 31.481 162 86 8 4 150 24 175 1.16e-13 68.9
MsaG001402 AT3G18400.1 32.692 156 84 9 4 147 5 151 1.24e-13 68.9
MsaG001402 AT1G32510.1 30.061 163 88 7 3 145 5 161 1.73e-13 68.2
MsaG001402 AT5G04410.1 30.380 158 86 6 4 146 9 157 1.75e-13 68.9
MsaG001402 AT2G02450.2 30.233 172 99 6 3 162 50 212 1.77e-13 68.9
MsaG001402 AT1G52890.1 31.250 160 80 7 4 146 14 160 2.58e-13 68.2
MsaG001402 AT5G46590.2 32.374 139 80 6 4 135 6 137 2.98e-13 67.4
MsaG001402 AT5G64060.1 27.556 225 121 9 4 207 6 209 4.29e-13 67.8
MsaG001402 AT5G61430.1 29.448 163 91 6 4 151 16 169 5.69e-13 67.0
MsaG001402 AT5G04395.1 32.886 149 79 6 4 135 28 172 5.85e-13 65.1
MsaG001402 AT5G50820.1 33.824 136 75 6 4 135 17 141 9.24e-13 64.7
MsaG001402 AT5G64530.1 28.866 194 104 6 4 176 3 183 1.07e-12 64.7
MsaG001402 AT5G39820.1 33.333 138 77 5 2 132 18 147 1.17e-12 66.2
MsaG001402 AT3G15510.1 27.950 161 85 5 10 146 23 176 1.19e-12 66.2
MsaG001402 AT5G09330.5 30.189 159 85 6 4 146 6 154 1.43e-12 66.2
MsaG001402 AT5G09330.2 30.189 159 85 6 4 146 6 154 1.43e-12 66.2
MsaG001402 AT5G09330.4 30.189 159 85 6 4 146 6 154 1.43e-12 66.2
MsaG001402 AT5G09330.3 30.189 159 85 6 4 146 6 154 1.43e-12 66.2
MsaG001402 AT5G09330.1 30.189 159 85 6 4 146 6 154 1.43e-12 66.2
MsaG001402 AT5G64530.2 34.848 132 67 6 4 132 3 118 1.75e-12 63.2
MsaG001402 AT5G07680.1 29.878 164 89 7 4 151 17 170 3.98e-12 64.7
MsaG001402 AT5G07680.2 29.878 164 89 7 4 151 3 156 4.06e-12 64.7
MsaG001402 AT2G46770.1 26.906 223 122 8 4 194 16 229 5.13e-12 64.7
MsaG001402 AT3G04060.1 30.818 159 85 7 4 146 20 169 5.16e-12 64.3
MsaG001402 AT3G12977.1 28.000 175 102 7 4 163 18 183 8.53e-12 63.5
MsaG001402 AT5G18270.2 32.075 159 83 8 4 146 21 170 1.26e-11 63.2
MsaG001402 AT5G18270.1 32.075 159 83 8 4 146 21 170 1.29e-11 63.2

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAATTTGGACTCTGAATTT+AGG 0.140254 1:+19572543 MsaT001402.1:CDS
CCATGGTTCTGACCTGATTA+AGG 0.246294 1:+19572081 MsaT001402.1:CDS
CCTCCTCTGCTCATCAGTTT+TGG 0.253784 1:-19572194 None:intergenic
CCACCCTAGAGGGATGAATT+TGG 0.272352 1:+19572529 MsaT001402.1:CDS
GAATTTGGACTCTGAATTTA+GGG 0.274715 1:+19572544 MsaT001402.1:CDS
CCTTGTGTGAGGGAAGAAAA+AGG 0.358153 1:-19572152 None:intergenic
GGCATTGTAAGACTGGATTC+TGG 0.399311 1:+19572215 MsaT001402.1:CDS
GATTTGCTTCCACCTGGTGC+TGG 0.403266 1:+19571986 MsaT001402.1:CDS
ACAGGTTCAGCTCCTTAATC+AGG 0.411998 1:-19572093 None:intergenic
TCTAGTGATGGTGCTGGTGC+TGG 0.412235 1:+19572662 MsaT001402.1:CDS
ACTCAGCAACTTAAAGCGGC+TGG 0.459648 1:+19572632 MsaT001402.1:CDS
GCAATTCAAATGGATCATAC+TGG 0.470518 1:-19572117 None:intergenic
CTCAGCAACTTAAAGCGGCT+GGG 0.471655 1:+19572633 MsaT001402.1:CDS
TGAGCAAGATGCAATTCAAA+TGG 0.471704 1:-19572127 None:intergenic
CAGAGGAGGCATTGTAAGAC+TGG 0.471934 1:+19572208 MsaT001402.1:CDS
GGCTACTCAAGCCACTCTTT+AGG 0.473252 1:+19572715 MsaT001402.1:CDS
GCTGGTGCTGGTGCTGAGCA+AGG 0.476489 1:+19572674 MsaT001402.1:CDS
AAAACACGGCAAACAACAAA+AGG 0.482067 1:-19572503 None:intergenic
CAAATGGATCATACTGGTAC+AGG 0.492656 1:-19572111 None:intergenic
GAAGATGTTCAGAATTTCCA+TGG 0.508550 1:+19572064 MsaT001402.1:CDS
TGGAGCTGATGACGTGTTGG+TGG 0.510033 1:+19572270 MsaT001402.1:CDS
TGAGCAAGGTGATGCATCGC+GGG 0.522801 1:+19572688 MsaT001402.1:CDS
AGGTGATGCATCGCGGGTCA+TGG 0.525772 1:+19572694 MsaT001402.1:CDS
GAGTCCAAATTCATCCCTCT+AGG 0.526556 1:-19572533 None:intergenic
GCTGTCAGAGACATTACTGC+TGG 0.527123 1:+19572250 MsaT001402.1:CDS
TCTGATGACAAGGCGAATGA+AGG 0.528665 1:+19572608 MsaT001402.1:CDS
GCAATGGATTTGCTTCCACC+TGG 0.532019 1:+19571980 None:intergenic
AGAACGCGATCAAAACTAGC+TGG 0.546737 1:+19572335 MsaT001402.1:CDS
CACTCTTGTTAACAACCCTC+AGG 0.546751 1:+19572372 MsaT001402.1:CDS
GCTAGTTCTAGTGATGGTGC+TGG 0.549559 1:+19572656 MsaT001402.1:CDS
ACCTTCACCTACATCAGATA+AGG 0.551670 1:-19572567 None:intergenic
TTTAGGGCCTTATCTGATGT+AGG 0.555385 1:+19572560 MsaT001402.1:CDS
TGCTGGAGCTGATGACGTGT+TGG 0.559512 1:+19572267 MsaT001402.1:CDS
GAAGGGACGAAGCCAGCACC+AGG 0.569334 1:-19571998 None:intergenic
TCAGCAACTTAAAGCGGCTG+GGG 0.574795 1:+19572634 MsaT001402.1:CDS
CAGTAAAACTCCCTTGTGTG+AGG 0.577220 1:-19572163 None:intergenic
GACTGGATTCTGGATGCAGA+AGG 0.580380 1:+19572225 MsaT001402.1:CDS
CCAAAACTGATGAGCAGAGG+AGG 0.581988 1:+19572194 MsaT001402.1:CDS
TGGCAAGGTAATAGCTAACA+AGG 0.592858 1:-19572030 None:intergenic
GCCTTATCTGATGTAGGTGA+AGG 0.597039 1:+19572566 MsaT001402.1:CDS
CTGAGCAAGGTGATGCATCG+CGG 0.602158 1:+19572687 MsaT001402.1:CDS
AGTAAAACTCCCTTGTGTGA+GGG 0.603789 1:-19572162 None:intergenic
AGTCCAAATTCATCCCTCTA+GGG 0.605368 1:-19572532 None:intergenic
GTAGGTGAAGGTGATGCTGC+TGG 0.606109 1:+19572578 MsaT001402.1:CDS
ACTGGATTCTGGATGCAGAA+GGG 0.607334 1:+19572226 MsaT001402.1:CDS
GCTGGGGCTAGTTCTAGTGA+TGG 0.621987 1:+19572650 MsaT001402.1:CDS
CCTTAATCAGGTCAGAACCA+TGG 0.626777 1:-19572081 None:intergenic
AATATATGTTACCTAAAGAG+TGG 0.627745 1:-19572726 None:intergenic
AGGAACTCAGCAACTTAAAG+CGG 0.631713 1:+19572628 MsaT001402.1:CDS
TAACAAGGAGTTCATCAGAA+GGG 0.633655 1:-19572015 None:intergenic
GGGACGAAGCCAGCACCAGG+TGG 0.645386 1:-19571995 None:intergenic
GGAGCTGATGACGTGTTGGT+GGG 0.653652 1:+19572271 MsaT001402.1:CDS
TGGTGATGACTCTGATGACA+AGG 0.654459 1:+19572598 MsaT001402.1:CDS
CTGCCAAAACTGATGAGCAG+AGG 0.655541 1:+19572191 MsaT001402.1:CDS
CTAACAAGGAGTTCATCAGA+AGG 0.667376 1:-19572016 None:intergenic
CCAAATTCATCCCTCTAGGG+TGG 0.667792 1:-19572529 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 19571983 19572736 19571983 ID=MsaG001402
Chr1 mRNA 19571983 19572736 19571983 ID=MsaT001402.1;Parent=MsaG001402
Chr1 exon 19571983 19572393 19571983 ID=MsaT001402.1.exon1;Parent=MsaT001402.1
Chr1 CDS 19571983 19572393 19571983 ID=cds.MsaT001402.1;Parent=MsaT001402.1
Chr1 exon 19572500 19572736 19572500 ID=MsaT001402.1.exon2;Parent=MsaT001402.1
Chr1 CDS 19572500 19572736 19572500 ID=cds.MsaT001402.1;Parent=MsaT001402.1
Gene Sequence

>MsaT001402.1

ATGGATTTGCTTCCACCTGGTGCTGGCTTCGTCCCTTCTGATGAACTCCTTGTTAGCTATTACCTTGCCAACAAAAACAATGAAGATGTTCAGAATTTCCATGGTTCTGACCTGATTAAGGAGCTGAACCTGTACCAGTATGATCCATTTGAATTGCATCTTGCTCAATCCTTTTTCTTCCCTCACACAAGGGAGTTTTACTGCTTCACTGCCAAAACTGATGAGCAGAGGAGGCATTGTAAGACTGGATTCTGGATGCAGAAGGGAGCTGTCAGAGACATTACTGCTGGAGCTGATGACGTGTTGGTGGGAAAGAAGTCTCTCTTCTTTTTCTATATAGGAAATTCCCCTCAGAACGCGATCAAAACTAGCTGGACTATGTACGAGTACACTCTTGTTAACAACCCTCAGGATCCTTTTGTTGTTTGCCGTGTTTTTGACCACCCTAGAGGGATGAATTTGGACTCTGAATTTAGGGCCTTATCTGATGTAGGTGAAGGTGATGCTGCTGGTGATGACTCTGATGACAAGGCGAATGAAGGAACTCAGCAACTTAAAGCGGCTGGGGCTAGTTCTAGTGATGGTGCTGGTGCTGGTGCTGAGCAAGGTGATGCATCGCGGGTCATGGCTACTCAAGCCACTCTTTAG
Protein sequence

>MsaT001402.1

MDLLPPGAGFVPSDELLVSYYLANKNNEDVQNFHGSDLIKELNLYQYDPFELHLAQSFFFPHTREFYCFTAKTDEQRRHCKTGFWMQKGAVRDITAGADDVLVGKKSLFFFYIGNSPQNAIKTSWTMYEYTLVNNPQDPFVVCRVFDHPRGMNLDSEFRALSDVGEGDAAGDDSDDKANEGTQQLKAAGASSSDGAGAGAEQGDASRVMATQATL*