AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014481

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014481 MtrunA17_Chr3g0106101 96.591 176 5 1 1 175 1 176 7.56e-127 353
MsaG014481 MtrunA17_Chr5g0437571 67.241 174 40 6 1 173 1 158 2.27e-76 225
MsaG014481 MtrunA17_Chr3g0114061 67.949 156 38 2 2 157 3 146 1.77e-72 215
MsaG014481 MtrunA17_Chr2g0311601 70.536 112 33 0 6 117 12 123 8.65e-58 178
MsaG014481 MtrunA17_Chr4g0043421 65.833 120 41 0 3 122 11 130 8.70e-58 179
MsaG014481 MtrunA17_Chr4g0030001 64.545 110 38 1 6 114 23 132 3.31e-48 155
MsaG014481 MtrunA17_Chr1g0200201 66.355 107 36 0 8 114 73 179 4.54e-48 155
MsaG014481 MtrunA17_Chr4g0058651 65.385 104 36 0 5 108 9 112 1.84e-47 153
MsaG014481 MtrunA17_Chr3g0117121 65.094 106 37 0 3 108 6 111 3.98e-47 152
MsaG014481 MtrunA17_Chr6g0449641 57.522 113 48 0 5 117 7 119 2.36e-46 149
MsaG014481 MtrunA17_Chr7g0227511 61.538 104 40 0 5 108 9 112 1.16e-45 147
MsaG014481 MtrunA17_Chr6g0449651 51.538 130 59 1 2 131 62 187 3.21e-45 147
MsaG014481 MtrunA17_Chr5g0438091 57.258 124 48 1 5 128 37 155 5.12e-45 147
MsaG014481 MtrunA17_Chr3g0129071 62.385 109 41 0 6 114 46 154 1.12e-44 147
MsaG014481 MtrunA17_Chr3g0115431 60.577 104 41 0 4 107 6 109 3.46e-44 145
MsaG014481 MtrunA17_Chr5g0402611 61.905 105 40 0 3 107 4 108 1.04e-43 147
MsaG014481 MtrunA17_Chr5g0437401 61.538 104 40 0 4 107 8 111 9.31e-43 140
MsaG014481 MtrunA17_Chr3g0097221 57.009 107 46 0 1 107 1 107 1.95e-42 143
MsaG014481 MtrunA17_Chr3g0113891 62.000 100 38 0 5 104 12 111 1.23e-41 138
MsaG014481 MtrunA17_Chr8g0353981 63.551 107 39 0 1 107 1 107 2.58e-41 138
MsaG014481 MtrunA17_Chr5g0432451 55.200 125 54 1 6 128 42 166 5.31e-41 137
MsaG014481 MtrunA17_Chr7g0260971 57.009 107 44 2 2 107 10 115 2.12e-38 130
MsaG014481 MtrunA17_Chr1g0184281 51.724 116 55 1 3 117 11 126 9.08e-38 129
MsaG014481 MtrunA17_Chr5g0444351 41.007 139 79 1 8 143 6 144 1.09e-37 126
MsaG014481 MtrunA17_Chr8g0351721 52.033 123 56 2 4 125 15 135 1.08e-36 126
MsaG014481 MtrunA17_Chr7g0225111 51.961 102 49 0 6 107 4 105 1.34e-36 123
MsaG014481 MtrunA17_Chr8g0351701 53.398 103 47 1 6 107 22 124 6.72e-35 122
MsaG014481 MtrunA17_Chr7g0245871 55.882 102 44 1 7 107 27 128 9.24e-35 122
MsaG014481 MtrunA17_Chr6g0460951 50.962 104 50 1 6 108 39 142 2.88e-34 120
MsaG014481 MtrunA17_Chr7g0261031 45.860 157 69 6 2 147 4 155 2.98e-34 120
MsaG014481 MtrunA17_Chr1g0184271 42.000 150 79 3 7 150 12 159 3.89e-33 117
MsaG014481 MtrunA17_Chr5g0435641 46.281 121 58 3 2 121 3 117 2.26e-31 112
MsaG014481 MtrunA17_Chr8g0374591 43.564 101 57 0 7 107 8 108 5.63e-31 109
MsaG014481 MtrunA17_Chr8g0374601 46.535 101 54 0 7 107 26 126 9.69e-31 112
MsaG014481 MtrunA17_Chr7g0245861 54.839 93 39 2 4 93 9 101 7.19e-30 106
MsaG014481 MtrunA17_Chr8g0374581 46.602 103 54 1 7 108 8 110 1.32e-29 108
MsaG014481 MtrunA17_Chr6g0460941 47.872 94 48 1 1 93 1 94 7.86e-28 100
MsaG014481 MtrunA17_Chr4g0059901 45.455 99 54 0 2 100 5 103 4.58e-27 102
MsaG014481 MtrunA17_Chr6g0452691 38.095 126 75 2 8 130 10 135 7.45e-26 97.8
MsaG014481 MtrunA17_Chr6g0452661 42.553 94 53 1 8 100 10 103 2.78e-25 97.8
MsaG014481 MtrunA17_Chr6g0452671 39.394 99 60 0 2 100 6 104 7.66e-25 95.5
MsaG014481 MtrunA17_Chr2g0330201 39.806 103 62 0 5 107 17 119 6.13e-24 95.1
MsaG014481 MtrunA17_Chr4g0040831 32.738 168 102 4 8 172 16 175 1.17e-23 92.4
MsaG014481 MtrunA17_Chr8g0342351 39.000 100 61 0 8 107 13 112 1.70e-23 93.6
MsaG014481 MtrunA17_Chr4g0055441 42.105 95 50 2 8 97 3 97 1.04e-21 86.3
MsaG014481 MtrunA17_Chr2g0326051 60.317 63 25 0 52 114 5 67 1.96e-21 84.7
MsaG014481 MtrunA17_Chr5g0439111 30.719 153 101 2 8 159 10 158 9.34e-21 85.5
MsaG014481 MtrunA17_Chr2g0326041 64.583 48 17 0 6 53 32 79 1.95e-19 78.2
MsaG014481 MtrunA17_Chr4g0046201 34.091 88 58 0 8 95 7 94 1.92e-17 77.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014481 AT2G30130.1 63.351 191 54 2 2 176 3 193 6.55e-78 231
MsaG014481 AT1G31320.1 64.463 121 43 0 3 123 9 129 6.68e-51 161
MsaG014481 AT1G07900.1 66.055 109 37 0 6 114 32 140 3.16e-50 160
MsaG014481 AT2G28500.1 64.865 111 39 0 6 116 54 164 4.38e-50 161
MsaG014481 AT1G16530.1 62.162 111 41 1 2 111 9 119 4.69e-48 154
MsaG014481 AT5G63090.4 66.019 103 35 0 5 107 9 111 2.52e-47 152
MsaG014481 AT5G63090.3 66.019 103 35 0 5 107 9 111 2.52e-47 152
MsaG014481 AT5G63090.2 66.019 103 35 0 5 107 9 111 2.52e-47 152
MsaG014481 AT5G63090.1 66.019 103 35 0 5 107 9 111 2.52e-47 152
MsaG014481 AT5G66870.1 64.486 107 38 0 1 107 1 107 1.66e-46 154
MsaG014481 AT3G27650.1 60.577 104 41 0 5 108 37 140 1.89e-45 147
MsaG014481 AT2G30340.2 59.130 115 46 1 6 120 52 165 1.22e-44 148
MsaG014481 AT2G30340.1 59.130 115 46 1 6 120 51 164 1.36e-44 148
MsaG014481 AT2G23660.2 59.615 104 42 0 5 108 3 106 2.68e-44 149
MsaG014481 AT2G23660.3 59.615 104 42 0 5 108 3 106 2.68e-44 149
MsaG014481 AT2G23660.1 59.615 104 42 0 5 108 3 106 2.68e-44 149
MsaG014481 AT3G26620.1 55.263 114 51 0 8 121 6 119 3.48e-44 142
MsaG014481 AT3G26660.1 57.273 110 47 0 8 117 6 115 1.27e-43 141
MsaG014481 AT2G40470.2 63.158 114 42 0 6 119 19 132 4.29e-43 142
MsaG014481 AT2G40470.1 63.158 114 42 0 6 119 44 157 9.46e-43 142
MsaG014481 AT3G11090.1 61.538 104 40 0 5 108 9 112 9.65e-42 138
MsaG014481 AT1G65620.1 64.762 105 37 0 3 107 5 109 2.61e-40 135
MsaG014481 AT1G65620.4 64.762 105 37 0 3 107 5 109 2.61e-40 135
MsaG014481 AT1G65620.3 64.762 105 37 0 3 107 5 109 2.61e-40 135
MsaG014481 AT1G65620.5 64.762 105 37 0 3 107 5 109 2.61e-40 135
MsaG014481 AT1G65620.2 64.762 105 37 0 3 107 5 109 2.61e-40 135
MsaG014481 AT2G42430.1 54.054 111 49 2 2 111 11 120 3.17e-36 126
MsaG014481 AT3G03760.1 53.846 104 47 1 6 108 50 153 3.93e-36 127
MsaG014481 AT4G00210.1 52.778 108 50 1 5 111 9 116 7.87e-35 122
MsaG014481 AT5G06080.1 39.869 153 82 2 1 143 1 153 4.05e-34 119
MsaG014481 AT2G42440.1 47.101 138 68 4 2 138 3 136 4.77e-34 120
MsaG014481 AT2G45410.1 55.340 103 45 1 10 111 19 121 7.53e-34 119
MsaG014481 AT2G31310.1 49.533 107 53 1 1 106 1 107 1.23e-33 118
MsaG014481 AT4G00220.1 52.885 104 48 1 10 112 20 123 2.74e-33 118
MsaG014481 AT2G45420.1 50.000 104 51 1 10 112 40 143 1.47e-32 117
MsaG014481 AT3G58190.1 47.414 116 60 1 7 121 11 126 1.07e-31 114
MsaG014481 AT3G50510.1 46.729 107 57 0 1 107 6 112 1.21e-30 110
MsaG014481 AT3G50510.2 46.729 107 57 0 1 107 6 112 1.21e-30 110
MsaG014481 AT1G72980.1 37.903 124 76 1 2 124 8 131 1.26e-25 98.2
MsaG014481 AT5G35900.1 37.903 124 76 1 5 128 3 125 1.99e-25 97.4
MsaG014481 AT3G13850.1 34.815 135 85 1 8 142 37 168 3.45e-24 95.9
MsaG014481 AT3G47870.1 39.286 112 61 1 2 113 31 135 4.50e-24 96.7
MsaG014481 AT1G06280.1 46.753 77 41 0 8 84 25 101 5.99e-20 83.2
MsaG014481 AT4G22700.1 32.812 128 68 3 4 130 2 112 1.34e-16 73.9
MsaG014481 AT2G19820.1 36.458 96 60 1 6 100 11 106 2.86e-16 71.6
MsaG014481 AT5G15060.1 40.541 74 40 2 8 78 18 90 4.67e-13 63.5
MsaG014481 AT1G36000.1 31.034 87 60 0 7 93 9 95 6.93e-12 60.1

Find 27 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCATTGTTCATAAGGTCTT+TGG 0.268404 3:+73791377 MsaT014481.1:CDS
GCTTCTGCTCTTTGATGAAT+TGG 0.304582 3:-73792230 None:intergenic
TTGACTTTGAAGGTATGATA+TGG 0.344536 3:-73792318 None:intergenic
CAAGTTTGCCATTGTTCATA+AGG 0.360416 3:+73791370 MsaT014481.1:CDS
ATCTTTCATCAAATGGGATC+AGG 0.406187 3:+73791257 None:intergenic
AGAGTGAGAGATCCTGTTTA+TGG 0.406868 3:+73792284 MsaT014481.1:CDS
TCTTAAGAGGCTCATAATCT+TGG 0.411156 3:-73792553 None:intergenic
TAGTAGAGTCTTGTTGCATC+TGG 0.421309 3:-73792394 None:intergenic
GCTCCAACACATCCATAAAC+AGG 0.465710 3:-73792296 None:intergenic
GAAGATGAAGAAGAAGAAGA+AGG 0.511426 3:-73792521 None:intergenic
GGGTCATCAGAAGGAAAGTA+AGG 0.522787 3:-73791344 None:intergenic
CTCATAATCTTGGAATACAT+TGG 0.523894 3:-73792543 None:intergenic
ATTGTGAAACTTGACTTTGA+AGG 0.527082 3:-73792328 None:intergenic
CAATATCAGCAAAATGCTGC+AGG 0.530826 3:+73791406 MsaT014481.1:CDS
ATTACAAATGCAACTTGCAA+TGG 0.534981 3:+73792349 MsaT014481.1:CDS
GAAGGAAAGTTAATATACTG+TGG 0.546177 3:-73792503 None:intergenic
TCTGAAAATAGTAATTGCTA+TGG 0.547956 3:+73792473 MsaT014481.1:CDS
AACTTGCGTGGGTCATCAGA+AGG 0.562825 3:-73791353 None:intergenic
GATCCTGTTTATGGATGTGT+TGG 0.563518 3:+73792293 MsaT014481.1:CDS
TGAACAATGGCAAACTTGCG+TGG 0.564051 3:-73791365 None:intergenic
TCATCTTGATCAACATGTGT+TGG 0.567464 3:-73792434 None:intergenic
AACAATTTGCAAGAAGCACA+AGG 0.605556 3:-73791287 None:intergenic
AACATGTGTTGGTAATGAGT+TGG 0.621378 3:-73792423 None:intergenic
GAACAATGGCAAACTTGCGT+GGG 0.629522 3:-73791364 None:intergenic
ACCAAAGACCTTATGAACAA+TGG 0.629967 3:-73791378 None:intergenic
TTTGCAAGAAGCACAAGGTG+AGG 0.647847 3:-73791282 None:intergenic
GTTGAGAAGACGTTGCACAC+AGG 0.684974 3:+73791307 MsaT014481.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 73791269 73792595 73791269 ID=MsaG014481
Chr3 mRNA 73791269 73792595 73791269 ID=MsaT014481.1;Parent=MsaG014481
Chr3 exon 73791269 73791427 73791269 ID=MsaT014481.1.exon1;Parent=MsaT014481.1
Chr3 CDS 73791269 73791427 73791269 ID=cds.MsaT014481.1;Parent=MsaT014481.1
Chr3 exon 73792224 73792595 73792224 ID=MsaT014481.1.exon2;Parent=MsaT014481.1
Chr3 CDS 73792224 73792595 73792224 ID=cds.MsaT014481.1;Parent=MsaT014481.1
Gene Sequence

>MsaT014481.1

ATGGGATCAGGTTCCTCACCTTGTGCTTCTTGCAAATTGTTGAGAAGACGTTGCACACAGGAATGTATCTTTGCTCCTTACTTTCCTTCTGATGACCCACGCAAGTTTGCCATTGTTCATAAGGTCTTTGGTGCTAGCAATATCAGCAAAATGCTGCAGGAGCTTCCAATTCATCAAAGAGCAGAAGCAGTGAACAGTTTAGTCTTTGAAGCAAATGCAAGAGTGAGAGATCCTGTTTATGGATGTGTTGGAGCCATATCATACCTTCAAAGTCAAGTTTCACAATTACAAATGCAACTTGCAATGGCTCAATCAGAGATTCTTTGCATCCAGATGCAACAAGACTCTACTACAGTTACCAACTCATTACCAACACATGTTGATCAAGATGACAAATTGATGCTACTATCTGAAAATAGTAATTGCTATGGAGTTCTTCCACAGTATATTAACTTTCCTTCTTCTTCTTCTTCATCTTCCAATGTATTCCAAGATTATGAGCCTCTTAAGAGAGAGACTTTTTGGACTTAA
Protein sequence

>MsaT014481.1

MGSGSSPCASCKLLRRRCTQECIFAPYFPSDDPRKFAIVHKVFGASNISKMLQELPIHQRAEAVNSLVFEANARVRDPVYGCVGAISYLQSQVSQLQMQLAMAQSEILCIQMQQDSTTVTNSLPTHVDQDDKLMLLSENSNCYGVLPQYINFPSSSSSSSNVFQDYEPLKRETFWT*