AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003264

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003264 MtrunA17_Chr4g0052061 54.839 155 44 2 1 132 1 152 1.26e-46 148
MsaG003264 MtrunA17_Chr4g0052081 58.228 158 40 1 1 132 1 158 1.78e-43 140
MsaG003264 MtrunA17_Chr8g0376821 36.145 166 70 5 1 132 1 164 3.85e-20 81.3
MsaG003264 MtrunA17_Chr8g0357771 34.146 164 76 4 1 132 1 164 5.97e-17 72.8
MsaG003264 MtrunA17_Chr1g0175601 35.583 163 69 6 1 129 1 161 6.86e-17 72.8
MsaG003264 MtrunA17_Chr1g0169761 66.000 50 17 0 1 50 1 50 9.86e-17 72.4
MsaG003264 MtrunA17_Chr8g0356071 32.704 159 79 3 1 132 1 158 2.18e-16 71.2
MsaG003264 MtrunA17_Chr4g0074101 60.784 51 20 0 1 51 1 51 5.77e-16 70.9
MsaG003264 MtrunA17_Chr1g0175611 32.317 164 79 4 1 132 1 164 6.15e-16 70.1
MsaG003264 MtrunA17_Chr1g0180591 32.544 169 72 5 1 132 1 164 1.46e-15 69.3
MsaG003264 MtrunA17_Chr2g0279821 59.615 52 21 0 1 52 1 52 2.22e-15 69.7
MsaG003264 MtrunA17_Chr3g0119901 31.847 157 66 4 1 118 8 162 7.37e-15 68.2
MsaG003264 MtrunA17_Chr5g0427401 37.405 131 62 5 1 112 1 130 8.29e-15 68.2
MsaG003264 MtrunA17_Chr5g0404951 34.815 135 61 5 1 113 1 130 2.67e-14 67.0
MsaG003264 MtrunA17_Chr3g0142191 55.769 52 23 0 1 52 1 52 4.36e-14 66.2
MsaG003264 MtrunA17_Chr5g0427921 52.830 53 25 0 1 53 1 53 8.44e-14 61.6
MsaG003264 MtrunA17_Chr1g0164791 50.000 56 28 0 1 56 1 56 9.05e-14 65.5
MsaG003264 MtrunA17_Chr3g0097101 30.303 132 72 1 1 112 16 147 1.07e-13 65.5
MsaG003264 MtrunA17_Chr4g0049541 32.061 131 70 2 1 112 1 131 1.18e-13 65.1
MsaG003264 MtrunA17_Chr3g0134451 52.727 55 26 0 1 55 1 55 1.23e-13 65.9
MsaG003264 MtrunA17_Chr1g0173161 52.830 53 25 0 1 53 1 53 4.29e-13 60.5
MsaG003264 MtrunA17_Chr4g0020221 53.846 52 24 0 1 52 1 52 4.61e-13 63.9
MsaG003264 MtrunA17_Chr3g0125241 44.444 72 38 2 1 72 26 95 6.16e-13 62.8
MsaG003264 MtrunA17_Chr6g0457851 32.773 119 71 3 1 117 11 122 6.52e-13 63.9
MsaG003264 MtrunA17_Chr7g0246431 31.852 135 66 4 1 112 1 132 6.75e-13 62.8
MsaG003264 MtrunA17_Chr5g0411691 55.769 52 23 0 1 52 1 52 6.83e-13 63.2
MsaG003264 MtrunA17_Chr1g0208581 30.464 151 68 3 2 115 9 159 9.60e-13 62.8
MsaG003264 MtrunA17_Chr7g0246381 49.091 55 28 0 1 55 1 55 1.24e-12 58.9
MsaG003264 MtrunA17_Chr5g0417661 50.909 55 27 0 1 55 56 110 1.31e-12 60.5
MsaG003264 MtrunA17_Chr7g0220121 31.008 129 72 3 1 113 1 128 1.38e-12 62.4
MsaG003264 MtrunA17_Chr8g0351041 31.579 133 70 2 1 112 1 133 1.51e-12 60.8
MsaG003264 MtrunA17_Chr8g0351031 30.612 147 81 2 1 126 1 147 1.57e-12 62.0
MsaG003264 MtrunA17_Chr3g0077501 47.692 65 31 1 1 62 1 65 1.58e-12 62.0
MsaG003264 MtrunA17_Chr5g0412271 53.846 52 24 0 1 52 1 52 1.61e-12 62.0
MsaG003264 MtrunA17_Chr5g0412461 53.846 52 24 0 1 52 1 52 1.74e-12 62.0
MsaG003264 MtrunA17_Chr4g0049901 43.750 80 36 2 1 71 27 106 2.48e-12 61.6
MsaG003264 MtrunA17_Chr5g0425191 50.000 56 28 0 1 56 1 56 2.62e-12 58.9
MsaG003264 MtrunA17_Chr2g0308251 42.623 61 35 0 1 61 1 61 3.86e-12 58.2
MsaG003264 MtrunA17_Chr5g0420081 51.923 52 25 0 1 52 1 52 5.12e-12 60.8
MsaG003264 MtrunA17_Chr8g0351051 51.923 52 25 0 1 52 1 52 5.41e-12 60.8
MsaG003264 MtrunA17_Chr3g0085241 29.299 157 70 4 1 118 40 194 6.58e-12 60.5
MsaG003264 MtrunA17_Chr5g0420091 50.000 52 26 0 1 52 1 52 6.87e-12 60.1
MsaG003264 MtrunA17_Chr1g0159661 43.548 62 34 1 1 62 1 61 7.61e-12 59.7
MsaG003264 MtrunA17_Chr4g0044071 49.057 53 27 0 1 53 1 53 9.09e-12 57.8
MsaG003264 MtrunA17_Chr7g0220111 50.000 52 26 0 1 52 1 52 9.87e-12 60.1
MsaG003264 MtrunA17_Chr6g0474371 50.000 52 26 0 1 52 1 52 1.02e-11 59.3
MsaG003264 MtrunA17_Chr4g0061691 48.077 52 27 0 1 52 1 52 1.24e-11 59.7
MsaG003264 MtrunA17_Chr4g0057151 32.877 146 78 4 1 126 1 146 1.34e-11 59.3
MsaG003264 MtrunA17_Chr1g0204111 51.923 52 25 0 1 52 17 68 1.42e-11 59.7
MsaG003264 MtrunA17_Chr2g0333981 49.020 51 26 0 1 51 11 61 1.42e-11 58.5
MsaG003264 MtrunA17_Chr6g0455511 43.056 72 38 1 1 72 1 69 1.94e-11 59.3
MsaG003264 MtrunA17_Chr3g0122251 50.000 52 26 0 1 52 1 52 2.00e-11 59.3
MsaG003264 MtrunA17_Chr8g0366231 48.077 52 27 0 1 52 1 52 2.10e-11 59.3
MsaG003264 MtrunA17_Chr8g0379021 49.020 51 26 0 2 52 12 62 2.27e-11 58.2
MsaG003264 MtrunA17_Chr8g0377561 49.057 53 27 0 1 53 1 53 2.31e-11 56.6
MsaG003264 MtrunA17_Chr4g0061671 48.077 52 27 0 1 52 1 52 2.31e-11 58.2
MsaG003264 MtrunA17_Chr2g0284911 51.923 52 25 0 1 52 16 67 3.03e-11 58.9
MsaG003264 MtrunA17_Chr8g0380021 51.923 52 25 0 1 52 17 68 3.56e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003264 AT2G34440.1 59.615 52 21 0 1 52 1 52 1.39e-16 72.0
MsaG003264 AT3G57230.2 57.692 52 22 0 1 52 1 52 3.78e-15 67.8
MsaG003264 AT3G57230.1 57.692 52 22 0 1 52 1 52 9.50e-15 68.6
MsaG003264 AT3G57230.4 57.692 52 22 0 1 52 1 52 9.50e-15 68.6
MsaG003264 AT5G65050.2 32.308 130 81 2 1 130 1 123 3.89e-14 65.9
MsaG003264 AT3G54340.1 53.846 52 24 0 1 52 1 52 4.54e-14 66.6
MsaG003264 AT5G65050.1 32.308 130 81 2 1 130 1 123 4.85e-14 65.9
MsaG003264 AT5G65050.3 32.308 130 81 2 1 130 1 123 5.75e-14 65.9
MsaG003264 AT5G23260.3 50.000 66 29 1 1 62 1 66 6.45e-14 66.2
MsaG003264 AT5G23260.2 50.000 66 29 1 1 62 1 66 6.67e-14 66.6
MsaG003264 AT3G66656.1 58.824 51 21 0 1 51 1 51 6.88e-14 65.1
MsaG003264 AT5G23260.1 50.000 66 29 1 1 62 17 82 7.84e-14 66.2
MsaG003264 AT5G23260.4 50.000 66 29 1 1 62 17 82 8.29e-14 66.2
MsaG003264 AT2G14210.1 55.769 52 23 0 1 52 1 52 9.10e-14 65.9
MsaG003264 AT2G14210.2 55.769 52 23 0 1 52 1 52 1.19e-13 65.5
MsaG003264 AT4G24540.1 35.252 139 56 5 1 112 1 132 1.49e-13 65.1
MsaG003264 AT3G57390.3 55.769 52 23 0 1 52 1 52 1.81e-13 65.1
MsaG003264 AT5G10140.2 51.923 52 25 0 1 52 1 52 1.96e-13 63.9
MsaG003264 AT5G65060.3 33.613 119 68 3 1 117 1 110 1.99e-13 64.3
MsaG003264 AT5G13790.2 53.846 52 24 0 1 52 1 52 2.30e-13 65.1
MsaG003264 AT5G13790.1 53.846 52 24 0 1 52 1 52 2.36e-13 65.1
MsaG003264 AT5G10140.4 51.923 52 25 0 1 52 1 52 2.47e-13 63.9
MsaG003264 AT5G10140.3 51.923 52 25 0 1 52 1 52 2.73e-13 63.9
MsaG003264 AT3G57390.1 55.769 52 23 0 1 52 1 52 2.85e-13 64.7
MsaG003264 AT5G65060.1 32.283 127 75 3 1 125 1 118 2.88e-13 63.9
MsaG003264 AT5G10140.1 51.923 52 25 0 1 52 1 52 2.97e-13 63.9
MsaG003264 AT5G65070.4 31.496 127 77 3 1 124 1 120 4.32e-13 62.4
MsaG003264 AT2G22540.3 41.414 99 51 2 1 93 1 98 4.51e-13 63.9
MsaG003264 AT2G22540.1 41.414 99 51 2 1 93 1 98 4.51e-13 63.9
MsaG003264 AT5G65060.2 31.343 134 80 3 1 127 1 129 5.65e-13 62.8
MsaG003264 AT5G51870.2 53.846 52 24 0 1 52 1 52 6.29e-13 62.8
MsaG003264 AT5G65050.5 50.000 52 26 0 1 52 1 52 6.68e-13 62.8
MsaG003264 AT1G47760.1 50.980 51 25 0 1 51 1 51 7.22e-13 62.8
MsaG003264 AT2G42830.1 28.859 149 86 3 1 129 16 164 8.26e-13 63.5
MsaG003264 AT2G42830.2 28.859 149 86 3 1 129 16 164 8.34e-13 63.5
MsaG003264 AT5G51870.5 53.846 52 24 0 1 52 24 75 8.57e-13 62.8
MsaG003264 AT2G22540.2 38.000 100 48 3 1 93 1 93 8.85e-13 63.2
MsaG003264 AT5G51870.1 53.846 52 24 0 1 52 1 52 9.37e-13 62.8
MsaG003264 AT5G65070.1 48.077 52 27 0 1 52 1 52 1.18e-12 62.4
MsaG003264 AT5G20240.2 51.923 52 25 0 1 52 1 52 1.22e-12 61.2
MsaG003264 AT5G51870.4 53.846 52 24 0 1 52 1 52 1.38e-12 62.4
MsaG003264 AT4G37940.1 51.923 52 25 0 1 52 1 52 1.40e-12 62.8
MsaG003264 AT2G03060.3 50.909 55 27 0 1 55 1 55 1.68e-12 63.5
MsaG003264 AT2G03060.7 50.909 55 27 0 1 55 1 55 1.68e-12 63.5
MsaG003264 AT2G03060.1 50.909 55 27 0 1 55 1 55 1.68e-12 63.5
MsaG003264 AT3G30260.1 50.000 52 26 0 1 52 1 52 1.72e-12 62.8
MsaG003264 AT5G20240.1 51.923 52 25 0 1 52 1 52 1.75e-12 62.0
MsaG003264 AT2G03060.2 50.909 55 27 0 1 55 1 55 1.78e-12 63.2
MsaG003264 AT5G51870.3 53.846 52 24 0 1 52 11 62 1.79e-12 62.4
MsaG003264 AT4G37940.4 51.923 52 25 0 1 52 1 52 1.84e-12 62.0
MsaG003264 AT5G60910.1 34.532 139 69 5 1 121 1 135 1.91e-12 62.4
MsaG003264 AT3G61120.1 53.846 52 24 0 1 52 1 52 2.01e-12 62.4
MsaG003264 AT3G58780.2 28.873 142 88 1 1 129 16 157 2.01e-12 62.4
MsaG003264 AT3G58780.1 29.530 149 85 3 1 129 16 164 2.24e-12 62.4
MsaG003264 AT3G58780.5 29.530 149 85 3 1 129 22 170 2.36e-12 62.4
MsaG003264 AT4G09960.6 53.846 52 24 0 1 52 2 53 2.39e-12 62.0
MsaG003264 AT4G09960.1 53.846 52 24 0 1 52 1 52 2.54e-12 62.0
MsaG003264 AT2G45660.2 51.923 52 25 0 1 52 1 52 2.64e-12 60.8
MsaG003264 AT4G09960.2 53.846 52 24 0 1 52 1 52 2.65e-12 61.6
MsaG003264 AT4G09960.5 53.846 52 24 0 1 52 11 62 2.73e-12 62.0
MsaG003264 AT4G37940.3 51.923 52 25 0 1 52 1 52 2.73e-12 60.8
MsaG003264 AT5G65070.2 48.077 52 27 0 1 52 1 52 2.78e-12 62.0
MsaG003264 AT5G65070.5 48.077 52 27 0 1 52 1 52 3.38e-12 61.2
MsaG003264 AT4G09960.4 53.846 52 24 0 1 52 96 147 3.60e-12 62.4
MsaG003264 AT4G09960.3 53.846 52 24 0 1 52 27 78 3.99e-12 61.6
MsaG003264 AT5G65070.3 48.077 52 27 0 1 52 1 52 4.28e-12 61.2
MsaG003264 AT2G45650.1 32.847 137 76 2 1 121 1 137 4.87e-12 61.2
MsaG003264 AT1G71692.1 51.923 52 25 0 1 52 1 52 5.07e-12 60.8
MsaG003264 AT1G22130.1 52.941 51 24 0 1 51 1 51 5.28e-12 62.0
MsaG003264 AT4G11880.2 51.923 52 25 0 1 52 1 52 6.67e-12 60.1
MsaG003264 AT4G11880.3 51.923 52 25 0 1 52 1 52 6.67e-12 60.1
MsaG003264 AT2G03710.3 43.056 72 39 1 1 72 1 70 6.79e-12 60.1
MsaG003264 AT3G58780.4 31.061 132 71 3 1 112 16 147 8.05e-12 61.2
MsaG003264 AT2G45660.1 51.923 52 25 0 1 52 1 52 8.62e-12 60.5
MsaG003264 AT5G51860.2 53.846 52 24 0 1 52 1 52 8.66e-12 60.1
MsaG003264 AT5G62165.17 50.000 52 26 0 1 52 1 52 8.91e-12 59.3
MsaG003264 AT5G62165.12 50.000 52 26 0 1 52 1 52 8.91e-12 59.3
MsaG003264 AT5G62165.11 50.000 52 26 0 1 52 1 52 8.91e-12 59.3
MsaG003264 AT5G62165.6 50.000 52 26 0 1 52 1 52 8.92e-12 59.3
MsaG003264 AT5G62165.9 50.000 52 26 0 1 52 1 52 8.92e-12 59.3
MsaG003264 AT5G62165.7 50.000 52 26 0 1 52 1 52 8.92e-12 59.3
MsaG003264 AT5G62165.8 50.000 52 26 0 1 52 1 52 8.92e-12 59.3
MsaG003264 AT5G62165.13 50.000 52 26 0 1 52 1 52 8.92e-12 59.3
MsaG003264 AT5G51860.1 53.846 52 24 0 1 52 1 52 9.03e-12 60.1
MsaG003264 AT4G11880.4 51.923 52 25 0 1 52 1 52 9.95e-12 60.1
MsaG003264 AT4G11880.1 51.923 52 25 0 1 52 1 52 9.95e-12 60.1
MsaG003264 AT1G77980.1 52.941 51 24 0 1 51 1 51 1.06e-11 60.8
MsaG003264 AT1G69120.2 50.000 52 26 0 1 52 1 52 1.25e-11 60.1
MsaG003264 AT4G22950.2 54.000 50 23 0 1 50 1 50 2.01e-11 58.5
MsaG003264 AT3G02310.2 50.000 52 26 0 1 52 1 52 2.03e-11 58.9
MsaG003264 AT5G62165.14 50.000 52 26 0 1 52 1 52 2.17e-11 57.0
MsaG003264 AT1G69120.1 50.000 52 26 0 1 52 1 52 2.32e-11 59.7
MsaG003264 AT5G62165.10 50.000 52 26 0 1 52 1 52 2.42e-11 58.9
MsaG003264 AT5G62165.4 50.000 52 26 0 1 52 1 52 2.42e-11 58.9
MsaG003264 AT5G62165.3 50.000 52 26 0 1 52 1 52 2.45e-11 58.9
MsaG003264 AT5G62165.1 50.000 52 26 0 1 52 1 52 2.45e-11 58.9
MsaG003264 AT5G62165.2 50.000 52 26 0 1 52 1 52 2.45e-11 58.9
MsaG003264 AT4G37435.1 50.000 52 26 0 1 52 1 52 2.46e-11 58.5
MsaG003264 AT3G58780.3 53.846 52 24 0 1 52 16 67 2.68e-11 59.7
MsaG003264 AT5G15800.1 50.000 52 26 0 1 52 1 52 2.73e-11 59.3
MsaG003264 AT5G65080.3 46.154 52 28 0 1 52 8 59 2.78e-11 58.5
MsaG003264 AT1G26310.1 48.077 52 27 0 1 52 1 52 2.78e-11 59.3
MsaG003264 AT3G02310.1 50.000 52 26 0 1 52 1 52 3.24e-11 59.3
MsaG003264 AT2G24840.1 50.980 51 25 0 1 51 62 112 3.25e-11 59.3
MsaG003264 AT1G24260.2 50.000 52 26 0 1 52 1 52 3.30e-11 59.3
MsaG003264 AT2G03710.1 43.056 72 39 1 1 72 1 70 3.38e-11 59.3
MsaG003264 AT1G24260.1 50.000 52 26 0 1 52 1 52 3.45e-11 58.9
MsaG003264 AT1G24260.3 50.000 52 26 0 1 52 1 52 3.49e-11 58.9
MsaG003264 AT2G03710.2 43.056 72 39 1 1 72 1 70 3.60e-11 58.9
MsaG003264 AT5G15800.2 50.000 52 26 0 1 52 1 52 3.92e-11 58.9
MsaG003264 AT4G22950.3 54.000 50 23 0 1 50 1 50 4.43e-11 58.5
MsaG003264 AT4G22950.1 54.000 50 23 0 1 50 1 50 4.43e-11 58.5
MsaG003264 AT1G77080.11 64.103 39 14 0 1 39 1 39 4.63e-11 57.8
MsaG003264 AT1G77080.5 64.103 39 14 0 1 39 1 39 4.96e-11 57.8
MsaG003264 AT4G18960.1 52.941 51 24 0 2 52 18 68 6.88e-11 58.2
MsaG003264 AT1G77080.12 64.103 39 14 0 1 39 1 39 7.14e-11 56.6
MsaG003264 AT1G77080.4 64.103 39 14 0 1 39 1 39 9.27e-11 57.4

Find 18 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGCTCGACAAAGAACTTA+TGG 0.305074 1:-54085965 MsaT003264.1:CDS
AATGTCGAGCCTTCAGAAAA+TGG 0.354386 1:-54085997 MsaT003264.1:CDS
AATGCTAGAGTTGGTATAGT+TGG 0.376951 1:-54087461 MsaT003264.1:CDS
TCAAGATCATCATAGGCAAT+AGG 0.426879 1:+54085892 None:intergenic
ATCAAAATCAAGATCATCAT+AGG 0.465463 1:+54085885 None:intergenic
GTGCTCGACAAAGAACTTAT+GGG 0.466259 1:-54085964 MsaT003264.1:CDS
ATCACATAGGTTTCTTTGCA+AGG 0.474087 1:+54085791 None:intergenic
ATTCTTTGTAATGCTAGAGT+TGG 0.486006 1:-54087470 MsaT003264.1:CDS
ATAGTTGGATTTACCCCTGC+TGG 0.488873 1:-54087446 MsaT003264.1:intron
ATTCTTTCTCTTAGAAAATG+TGG 0.500833 1:+54087523 None:intergenic
AAGCAAATGGGTTACCAGCA+GGG 0.566084 1:+54087432 None:intergenic
AGCAAATGGGTTACCAGCAG+GGG 0.580138 1:+54087433 None:intergenic
TTGTTGAGAACAAAGATGCA+AGG 0.612227 1:-54087550 MsaT003264.1:CDS
GACGAAAGAGCTGAAGAAGG+TGG 0.629958 1:-54085938 MsaT003264.1:CDS
TGTGACGAAAGAGCTGAAGA+AGG 0.666095 1:-54085941 MsaT003264.1:CDS
TTCGTTGGAAGAGCTTCGTG+CGG 0.675452 1:-54085842 MsaT003264.1:CDS
AAGGTGGAGACAATTGACAA+AGG 0.699124 1:-54085922 MsaT003264.1:CDS
AAACCCAAGGTGAATCATCG+AGG 0.722679 1:-54086023 MsaT003264.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 54085792 54087600 54085792 ID=MsaG003264
Chr1 mRNA 54085792 54087600 54085792 ID=MsaT003264.1;Parent=MsaG003264
Chr1 exon 54085792 54086036 54085792 ID=MsaT003264.1.exon2;Parent=MsaT003264.1
Chr1 CDS 54085792 54086036 54085792 ID=cds.MsaT003264.1;Parent=MsaT003264.1
Chr1 exon 54087447 54087600 54087447 ID=MsaT003264.1.exon1;Parent=MsaT003264.1
Chr1 CDS 54087447 54087600 54087447 ID=cds.MsaT003264.1;Parent=MsaT003264.1
Gene Sequence

>MsaT003264.1

ATGGGTCGTAAAAAAATAGCTATTGAATTTGTTGAGAACAAAGATGCAAGGTATGCCACATTTTCTAAGAGAAAGAATGGTCTTTTTAAGAAAGCAAATGAGTTGTCAATTCTTTGTAATGCTAGAGTTGGTATAGTTGGATTTACCCCTGCTGGTGAATCATCGAGGCAAAATGTCGAGCCTTCAGAAAATGGAAATATCAAAGTGCTCGACAAAGAACTTATGGGTGTGACGAAAGAGCTGAAGAAGGTGGAGACAATTGACAAAGGTAAACTGCCTATTGCCTATGATGATCTTGATTTTGATGGACTTAAAAAAGTGAAGGCTTCGTTGGAAGAGCTTCGTGCGGATATTGATGCAGCATCAACTTTGCTTCTCCTTGCAAAGAAACCTATGTGA
Protein sequence

>MsaT003264.1

MGRKKIAIEFVENKDARYATFSKRKNGLFKKANELSILCNARVGIVGFTPAGESSRQNVEPSENGNIKVLDKELMGVTKELKKVETIDKGKLPIAYDDLDFDGLKKVKASLEELRADIDAASTLLLLAKKPM*