AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028836

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028836 MtrunA17_Chr5g0437571 98.204 167 2 1 1 166 1 167 3.81e-122 340
MsaG028836 MtrunA17_Chr3g0114061 73.171 164 35 4 1 160 1 159 1.54e-80 235
MsaG028836 MtrunA17_Chr3g0106101 65.909 176 44 5 1 160 1 176 7.53e-73 216
MsaG028836 MtrunA17_Chr2g0311601 77.273 110 25 0 2 111 9 118 1.10e-59 182
MsaG028836 MtrunA17_Chr4g0043421 56.098 164 61 1 2 165 11 163 1.24e-58 180
MsaG028836 MtrunA17_Chr7g0227511 53.020 149 66 1 4 148 9 157 1.54e-50 160
MsaG028836 MtrunA17_Chr4g0058651 52.532 158 58 1 4 144 9 166 1.70e-50 160
MsaG028836 MtrunA17_Chr3g0117121 71.154 104 30 0 4 107 8 111 3.27e-50 159
MsaG028836 MtrunA17_Chr4g0030001 64.035 114 40 1 5 117 23 136 1.36e-49 158
MsaG028836 MtrunA17_Chr5g0438091 60.504 119 47 0 1 119 34 152 8.14e-49 156
MsaG028836 MtrunA17_Chr6g0449641 57.377 122 52 0 4 125 7 128 1.18e-48 154
MsaG028836 MtrunA17_Chr1g0200201 64.865 111 39 0 7 117 73 183 4.18e-48 155
MsaG028836 MtrunA17_Chr3g0129071 69.903 103 31 0 5 107 46 148 9.96e-48 154
MsaG028836 MtrunA17_Chr6g0449651 49.315 146 63 1 4 149 65 199 5.32e-47 151
MsaG028836 MtrunA17_Chr3g0115431 60.684 117 45 1 4 120 7 122 3.36e-46 150
MsaG028836 MtrunA17_Chr5g0402611 59.200 125 50 1 4 127 6 130 4.87e-45 150
MsaG028836 MtrunA17_Chr3g0113891 67.000 100 33 0 4 103 12 111 4.78e-44 144
MsaG028836 MtrunA17_Chr3g0097221 62.136 103 39 0 4 106 5 107 5.29e-44 147
MsaG028836 MtrunA17_Chr5g0432451 68.932 103 32 0 5 107 42 144 1.72e-43 144
MsaG028836 MtrunA17_Chr5g0437401 63.366 101 37 0 3 103 8 108 4.73e-42 138
MsaG028836 MtrunA17_Chr8g0353981 63.551 107 39 0 4 110 5 111 1.27e-41 139
MsaG028836 MtrunA17_Chr5g0444351 52.294 109 52 0 7 115 6 114 7.35e-39 129
MsaG028836 MtrunA17_Chr7g0260971 56.604 106 45 1 2 106 10 115 1.47e-38 130
MsaG028836 MtrunA17_Chr1g0184281 59.406 101 40 1 6 105 15 115 8.34e-38 128
MsaG028836 MtrunA17_Chr8g0351721 52.846 123 54 2 3 121 15 137 1.25e-37 128
MsaG028836 MtrunA17_Chr7g0225111 50.450 111 55 0 5 115 4 114 3.65e-37 124
MsaG028836 MtrunA17_Chr8g0351701 55.882 102 44 1 6 106 23 124 6.32e-36 124
MsaG028836 MtrunA17_Chr7g0245871 57.843 102 42 1 6 106 27 128 1.07e-35 124
MsaG028836 MtrunA17_Chr7g0261031 47.143 140 62 4 2 130 4 142 9.16e-35 121
MsaG028836 MtrunA17_Chr5g0435641 42.177 147 72 3 2 140 3 144 1.98e-33 117
MsaG028836 MtrunA17_Chr1g0184271 56.701 97 39 2 6 100 12 107 4.60e-33 117
MsaG028836 MtrunA17_Chr6g0460951 49.038 104 52 1 5 107 39 142 3.55e-32 114
MsaG028836 MtrunA17_Chr7g0245861 56.989 93 37 2 3 92 9 101 2.76e-31 110
MsaG028836 MtrunA17_Chr8g0374601 48.515 101 52 0 6 106 26 126 2.19e-30 111
MsaG028836 MtrunA17_Chr8g0374591 45.545 101 55 0 6 106 8 108 1.06e-29 105
MsaG028836 MtrunA17_Chr8g0374581 48.544 103 52 1 6 107 8 110 5.28e-29 106
MsaG028836 MtrunA17_Chr6g0452691 40.351 114 67 1 1 113 4 117 3.20e-27 100
MsaG028836 MtrunA17_Chr6g0460941 50.000 88 43 1 6 92 7 94 7.45e-27 97.1
MsaG028836 MtrunA17_Chr4g0059901 43.220 118 66 1 2 118 6 123 1.12e-24 96.3
MsaG028836 MtrunA17_Chr6g0452671 41.935 93 54 0 7 99 12 104 2.33e-24 94.0
MsaG028836 MtrunA17_Chr6g0452661 44.578 83 45 1 4 85 7 89 3.88e-23 92.0
MsaG028836 MtrunA17_Chr2g0326051 61.194 67 26 0 51 117 5 71 4.32e-23 88.6
MsaG028836 MtrunA17_Chr4g0040831 35.200 125 78 1 2 123 11 135 7.07e-23 90.1
MsaG028836 MtrunA17_Chr2g0330201 35.238 105 68 0 2 106 15 119 5.17e-21 87.0
MsaG028836 MtrunA17_Chr4g0055441 40.426 94 51 2 7 95 3 96 7.10e-21 83.6
MsaG028836 MtrunA17_Chr8g0342351 31.159 138 95 0 7 144 13 150 4.89e-20 84.0
MsaG028836 MtrunA17_Chr4g0046201 39.080 87 53 0 7 93 7 93 2.33e-19 82.0
MsaG028836 MtrunA17_Chr2g0326041 64.583 48 17 0 5 52 32 79 4.48e-19 77.0
MsaG028836 MtrunA17_Chr5g0439111 39.759 83 49 1 4 85 7 89 5.28e-18 77.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028836 AT2G30130.1 78.947 133 24 1 3 131 5 137 8.76e-74 219
MsaG028836 AT1G31320.1 70.940 117 34 0 2 118 9 125 3.27e-52 164
MsaG028836 AT2G28500.1 55.714 140 61 1 5 144 54 192 7.97e-52 165
MsaG028836 AT1G07900.1 59.091 132 53 1 5 136 32 162 2.67e-51 162
MsaG028836 AT1G16530.1 70.093 107 31 1 5 110 13 119 1.52e-50 160
MsaG028836 AT5G63090.4 70.874 103 30 0 4 106 9 111 1.42e-49 158
MsaG028836 AT5G63090.3 70.874 103 30 0 4 106 9 111 1.42e-49 158
MsaG028836 AT5G63090.2 70.874 103 30 0 4 106 9 111 1.42e-49 158
MsaG028836 AT5G63090.1 70.874 103 30 0 4 106 9 111 1.42e-49 158
MsaG028836 AT3G27650.1 67.308 104 34 0 4 107 37 140 1.17e-48 155
MsaG028836 AT2G30340.1 60.504 119 47 0 5 123 51 169 3.91e-47 154
MsaG028836 AT2G30340.2 60.504 119 47 0 5 123 52 170 4.78e-47 154
MsaG028836 AT2G23660.2 57.265 117 49 1 4 120 3 118 1.94e-45 151
MsaG028836 AT2G23660.3 57.265 117 49 1 4 120 3 118 1.94e-45 151
MsaG028836 AT2G23660.1 57.265 117 49 1 4 120 3 118 1.94e-45 151
MsaG028836 AT2G40470.2 70.874 103 30 0 5 107 19 121 3.64e-45 147
MsaG028836 AT2G40470.1 70.874 103 30 0 5 107 44 146 5.56e-45 147
MsaG028836 AT5G66870.1 64.078 103 37 0 4 106 5 107 7.05e-44 147
MsaG028836 AT3G26660.1 59.091 110 45 0 7 116 6 115 1.61e-43 140
MsaG028836 AT3G26620.1 59.091 110 45 0 7 116 6 115 2.05e-43 140
MsaG028836 AT3G11090.1 58.621 116 47 1 4 118 9 124 1.26e-41 137
MsaG028836 AT1G65620.1 66.019 103 35 0 4 106 7 109 3.81e-41 137
MsaG028836 AT1G65620.4 66.019 103 35 0 4 106 7 109 3.81e-41 137
MsaG028836 AT1G65620.3 66.019 103 35 0 4 106 7 109 3.81e-41 137
MsaG028836 AT1G65620.5 66.019 103 35 0 4 106 7 109 3.81e-41 137
MsaG028836 AT1G65620.2 66.019 103 35 0 4 106 7 109 3.81e-41 137
MsaG028836 AT4G00210.1 45.283 159 70 3 2 159 7 149 2.28e-37 128
MsaG028836 AT2G42430.1 56.604 106 45 1 2 106 11 116 5.93e-37 127
MsaG028836 AT2G45410.1 50.388 129 60 2 9 133 19 147 1.91e-36 125
MsaG028836 AT3G03760.1 54.808 104 46 1 5 107 50 153 3.17e-36 126
MsaG028836 AT2G42440.1 47.143 140 64 4 2 139 3 134 4.81e-35 122
MsaG028836 AT2G31310.1 45.455 143 66 4 1 132 1 142 7.88e-35 120
MsaG028836 AT2G45420.1 52.885 104 48 1 9 111 40 143 7.25e-34 120
MsaG028836 AT4G00220.1 53.846 104 47 1 9 111 20 123 1.43e-33 118
MsaG028836 AT3G58190.1 48.031 127 58 3 6 130 11 131 2.66e-33 117
MsaG028836 AT5G06080.1 52.727 110 46 2 5 113 6 110 9.99e-32 112
MsaG028836 AT3G50510.1 47.573 103 54 0 4 106 10 112 2.74e-30 109
MsaG028836 AT3G50510.2 47.573 103 54 0 4 106 10 112 2.74e-30 109
MsaG028836 AT5G35900.1 42.718 103 59 0 7 109 6 108 2.03e-25 97.1
MsaG028836 AT1G72980.1 39.130 115 69 1 2 115 9 123 1.84e-23 92.4
MsaG028836 AT3G47870.1 36.190 105 67 0 2 106 32 136 3.86e-23 93.6
MsaG028836 AT3G13850.1 38.947 95 58 0 7 101 37 131 9.19e-22 89.0
MsaG028836 AT1G06280.1 45.455 77 42 0 7 83 25 101 2.02e-19 81.6
MsaG028836 AT2G19820.1 37.079 89 55 1 5 92 11 99 1.33e-16 72.0
MsaG028836 AT4G22700.1 36.634 101 62 2 7 106 6 105 8.91e-16 71.6
MsaG028836 AT5G15060.1 43.243 74 38 2 7 77 18 90 5.29e-14 65.9
MsaG028836 AT1G36000.1 29.348 92 65 0 1 92 4 95 8.20e-13 62.0
MsaG028836 AT2G19510.1 27.174 92 67 0 1 92 4 95 7.75e-11 57.0

Find 21 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATCTGCTCTTTGGTGAAT+TGG 0.247897 5:-69470501 None:intergenic
CTCACTCAATACCTTAATTA+TGG 0.252400 5:+69470741 MsaT028836.1:CDS
TGTGAACTATGGCAAACTTT+TGG 0.274301 5:-69469648 None:intergenic
CATCTGCTCTTTGGTGAATT+GGG 0.326240 5:-69470500 None:intergenic
TAGAAGAAGAACCATAATTA+AGG 0.338211 5:-69470752 None:intergenic
TGTTCACTGCATCTGCTCTT+TGG 0.348086 5:-69470509 None:intergenic
TATAGTAAGATTTCTGATCT+TGG 0.371111 5:-69470707 None:intergenic
GCTCCAACACAGCCATAAAC+TGG 0.374722 5:-69470567 None:intergenic
TAATATGTATGGACATGATA+TGG 0.378652 5:+69470809 MsaT028836.1:CDS
AGAGTGAGGGATCCAGTTTA+TGG 0.403662 5:+69470555 MsaT028836.1:CDS
TCTTGGTTGATTTGTGGTGT+TGG 0.412347 5:-69470690 None:intergenic
GGTTCATGAGAAGGAAAATA+AGG 0.413213 5:-69469625 None:intergenic
CAATGTTAGCAAAATGTTGC+AGG 0.415314 5:+69469687 MsaT028836.1:CDS
CTTAAGAGAGATAATATGTA+TGG 0.442326 5:+69470798 MsaT028836.1:CDS
TTCTGATCTTGGTTGATTTG+TGG 0.443495 5:-69470696 None:intergenic
GATCCAGTTTATGGCTGTGT+TGG 0.485932 5:+69470564 MsaT028836.1:CDS
AAAGTTTGCCATAGTTCACA+AGG 0.602163 5:+69469651 MsaT028836.1:CDS
AGAAGGAAAATAAGGAGCAA+AGG 0.607624 5:-69469617 None:intergenic
ATGAAGCAAATGCAAGAGTG+AGG 0.619290 5:+69470541 MsaT028836.1:CDS
AGAAGCTTGCATGAAGCACA+TGG 0.628381 5:-69469568 None:intergenic
TGAAGCAAATGCAAGAGTGA+GGG 0.632506 5:+69470542 MsaT028836.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 69469553 69470839 69469553 ID=MsaG028836
Chr5 mRNA 69469553 69470839 69469553 ID=MsaT028836.1;Parent=MsaG028836
Chr5 exon 69469553 69469708 69469553 ID=MsaT028836.1.exon1;Parent=MsaT028836.1
Chr5 CDS 69469553 69469708 69469553 ID=cds.MsaT028836.1;Parent=MsaT028836.1
Chr5 exon 69470495 69470839 69470495 ID=MsaT028836.1.exon2;Parent=MsaT028836.1
Chr5 CDS 69470495 69470839 69470495 ID=cds.MsaT028836.1;Parent=MsaT028836.1
Gene Sequence

>MsaT028836.1

ATGGGTGGAAATTCACCATGTGCTTCATGCAAGCTTCTGAGACGAAGATGCACAAAAGATTGCACCTTTGCTCCTTATTTTCCTTCTCATGAACCCCAAAAGTTTGCCATAGTTCACAAGGTTTTTGGTGCTAGCAATGTTAGCAAAATGTTGCAGGAGCTCCCAATTCACCAAAGAGCAGATGCAGTGAACAGTTTAGTCTATGAAGCAAATGCAAGAGTGAGGGATCCAGTTTATGGCTGTGTTGGAGCAATATCTTACTTGCAAAATCAAGTTTCTGAGCTTCAAATGCAACTTGCAGTTGCTCAAGCAGAGATACTATGCATCCAGATGCAAAATGAGCAAGTGATTCCAACACCACAAATCAACCAAGATCAGAAATCTTACTATATTCAAGATGAACTCACTCAATACCTTAATTATGGTTCTTCTTCTAGTAATAATGTTATTCATGATTCTCTTAAGAGAGATAATATGTATGGACATGATATGGTTTCTTGA
Protein sequence

>MsaT028836.1

MGGNSPCASCKLLRRRCTKDCTFAPYFPSHEPQKFAIVHKVFGASNVSKMLQELPIHQRADAVNSLVYEANARVRDPVYGCVGAISYLQNQVSELQMQLAVAQAEILCIQMQNEQVIPTPQINQDQKSYYIQDELTQYLNYGSSSSNNVIHDSLKRDNMYGHDMVS*