AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028528

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028528 MtrunA17_Chr5g0432451 99.383 162 1 0 11 172 7 168 9.65e-120 338
MsaG028528 MtrunA17_Chr3g0129071 75.163 153 30 3 10 156 6 156 7.70e-80 237
MsaG028528 MtrunA17_Chr5g0438091 73.885 157 35 4 12 167 9 160 9.79e-76 225
MsaG028528 MtrunA17_Chr4g0043421 60.465 129 50 1 46 173 14 142 6.95e-52 164
MsaG028528 MtrunA17_Chr2g0311601 62.185 119 45 0 39 157 5 123 3.91e-51 161
MsaG028528 MtrunA17_Chr5g0437571 67.961 103 33 0 46 148 5 107 3.52e-49 157
MsaG028528 MtrunA17_Chr3g0114061 65.094 106 37 0 43 148 4 109 3.02e-48 154
MsaG028528 MtrunA17_Chr4g0058651 57.576 132 51 1 46 177 10 136 1.26e-47 153
MsaG028528 MtrunA17_Chr3g0117121 63.303 109 40 0 46 154 9 117 7.40e-47 151
MsaG028528 MtrunA17_Chr3g0106101 51.938 129 60 1 46 174 6 132 5.90e-46 149
MsaG028528 MtrunA17_Chr7g0227511 63.810 105 38 0 46 150 10 114 1.37e-45 147
MsaG028528 MtrunA17_Chr4g0030001 56.557 122 51 2 35 154 11 132 2.17e-44 145
MsaG028528 MtrunA17_Chr6g0449641 55.752 113 50 0 46 158 8 120 5.02e-44 143
MsaG028528 MtrunA17_Chr3g0115431 54.918 122 47 1 46 167 8 121 4.22e-43 143
MsaG028528 MtrunA17_Chr1g0200201 59.259 108 44 0 48 155 73 180 2.70e-42 141
MsaG028528 MtrunA17_Chr6g0449651 53.982 113 52 0 46 158 66 178 6.06e-42 139
MsaG028528 MtrunA17_Chr5g0402611 60.000 105 42 0 46 150 7 111 6.64e-41 140
MsaG028528 MtrunA17_Chr7g0245871 62.745 102 37 1 47 147 27 128 4.23e-40 136
MsaG028528 MtrunA17_Chr3g0113891 57.944 107 39 1 34 140 7 107 8.00e-40 133
MsaG028528 MtrunA17_Chr7g0260971 55.357 112 49 1 37 147 4 115 1.22e-39 134
MsaG028528 MtrunA17_Chr8g0353981 59.434 106 43 0 46 151 6 111 1.78e-39 134
MsaG028528 MtrunA17_Chr5g0437401 53.448 116 48 1 34 149 4 113 7.71e-39 130
MsaG028528 MtrunA17_Chr3g0097221 56.604 106 46 0 46 151 6 111 1.11e-38 134
MsaG028528 MtrunA17_Chr7g0225111 51.923 104 50 0 48 151 6 109 4.72e-37 124
MsaG028528 MtrunA17_Chr1g0184281 56.436 101 43 1 47 146 15 115 2.80e-35 122
MsaG028528 MtrunA17_Chr6g0460951 51.852 108 51 1 45 151 38 145 1.28e-34 121
MsaG028528 MtrunA17_Chr8g0351701 56.604 106 45 1 47 151 23 128 1.58e-34 121
MsaG028528 MtrunA17_Chr8g0351721 53.509 114 52 1 35 147 6 119 2.66e-34 120
MsaG028528 MtrunA17_Chr5g0444351 49.038 104 53 0 48 151 6 109 2.73e-33 115
MsaG028528 MtrunA17_Chr7g0261031 54.369 103 44 2 46 146 7 108 6.50e-32 114
MsaG028528 MtrunA17_Chr8g0374601 45.217 115 63 0 45 159 24 138 7.20e-32 115
MsaG028528 MtrunA17_Chr1g0184271 57.292 96 38 2 47 140 12 106 9.12e-32 114
MsaG028528 MtrunA17_Chr5g0435641 53.125 96 44 1 46 140 6 101 8.30e-31 110
MsaG028528 MtrunA17_Chr8g0374591 44.860 107 59 0 44 150 5 111 3.79e-29 104
MsaG028528 MtrunA17_Chr8g0374581 47.664 107 55 1 45 150 6 112 3.46e-28 105
MsaG028528 MtrunA17_Chr7g0245861 54.444 90 38 2 47 133 12 101 4.82e-26 97.1
MsaG028528 MtrunA17_Chr4g0059901 43.269 104 59 0 44 147 7 110 1.31e-25 99.4
MsaG028528 MtrunA17_Chr6g0460941 46.067 89 47 1 47 134 7 95 4.17e-25 93.2
MsaG028528 MtrunA17_Chr6g0452691 35.772 123 78 1 48 169 10 132 5.42e-25 95.5
MsaG028528 MtrunA17_Chr6g0452671 37.255 102 64 0 43 144 7 108 3.87e-23 91.3
MsaG028528 MtrunA17_Chr6g0452661 38.053 113 65 3 42 150 1 112 5.67e-23 92.0
MsaG028528 MtrunA17_Chr4g0040831 40.206 97 58 0 48 144 16 112 2.51e-22 89.0
MsaG028528 MtrunA17_Chr2g0330201 40.952 105 60 2 44 147 16 119 3.05e-22 90.9
MsaG028528 MtrunA17_Chr8g0342351 36.697 109 67 2 44 151 9 116 1.85e-20 85.5
MsaG028528 MtrunA17_Chr5g0439111 37.168 113 66 3 42 150 1 112 3.72e-20 84.0
MsaG028528 MtrunA17_Chr4g0055441 37.500 104 63 2 48 150 3 105 1.50e-19 80.9
MsaG028528 MtrunA17_Chr2g0326041 64.583 48 17 0 45 92 31 78 1.29e-18 76.3
MsaG028528 MtrunA17_Chr2g0326051 54.688 64 29 0 92 155 5 68 8.38e-18 75.5
MsaG028528 MtrunA17_Chr4g0046201 32.955 88 59 0 46 133 5 92 3.75e-14 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028528 AT2G30340.1 77.206 136 29 2 28 162 33 167 5.27e-73 221
MsaG028528 AT2G30340.2 68.098 163 45 4 6 162 7 168 5.56e-73 221
MsaG028528 AT2G40470.1 67.052 173 50 5 10 177 6 176 1.68e-66 203
MsaG028528 AT2G40470.2 71.812 149 39 2 30 177 5 151 3.96e-65 199
MsaG028528 AT1G31320.1 64.602 113 40 0 46 158 12 124 5.99e-47 151
MsaG028528 AT2G30130.1 66.019 103 35 0 46 148 7 109 7.11e-47 152
MsaG028528 AT1G07900.1 57.143 112 48 0 44 155 30 141 2.54e-45 148
MsaG028528 AT2G28500.1 60.952 105 41 0 44 148 52 156 1.75e-44 147
MsaG028528 AT3G27650.1 60.748 107 42 0 44 150 36 142 4.44e-44 144
MsaG028528 AT5G63090.4 58.475 118 49 0 46 163 10 127 1.42e-43 143
MsaG028528 AT5G63090.3 58.475 118 49 0 46 163 10 127 1.42e-43 143
MsaG028528 AT5G63090.2 58.475 118 49 0 46 163 10 127 1.42e-43 143
MsaG028528 AT5G63090.1 58.475 118 49 0 46 163 10 127 1.42e-43 143
MsaG028528 AT1G16530.1 46.154 143 71 2 44 180 11 153 3.77e-43 141
MsaG028528 AT2G23660.2 59.048 105 43 0 46 150 4 108 8.53e-42 142
MsaG028528 AT2G23660.3 59.048 105 43 0 46 150 4 108 8.53e-42 142
MsaG028528 AT2G23660.1 59.048 105 43 0 46 150 4 108 8.53e-42 142
MsaG028528 AT1G65620.1 63.303 109 40 0 43 151 5 113 2.47e-41 138
MsaG028528 AT1G65620.4 63.303 109 40 0 43 151 5 113 2.47e-41 138
MsaG028528 AT1G65620.3 63.303 109 40 0 43 151 5 113 2.47e-41 138
MsaG028528 AT1G65620.5 63.303 109 40 0 43 151 5 113 2.47e-41 138
MsaG028528 AT1G65620.2 63.303 109 40 0 43 151 5 113 2.47e-41 138
MsaG028528 AT5G66870.1 60.000 105 42 0 46 150 6 110 8.10e-41 140
MsaG028528 AT3G11090.1 60.194 103 41 0 48 150 12 114 2.00e-39 132
MsaG028528 AT4G00210.1 55.856 111 48 1 38 147 2 112 3.85e-37 128
MsaG028528 AT3G26620.1 48.246 114 59 0 48 161 6 119 6.80e-37 124
MsaG028528 AT3G26660.1 53.000 100 47 0 48 147 6 105 7.50e-37 124
MsaG028528 AT2G42430.1 49.180 122 61 1 38 158 6 127 1.13e-36 127
MsaG028528 AT3G03760.1 55.140 107 47 1 46 151 50 156 2.03e-35 125
MsaG028528 AT5G06080.1 51.852 108 51 1 46 152 6 113 1.05e-33 118
MsaG028528 AT3G58190.1 51.587 126 49 4 47 170 11 126 1.55e-33 119
MsaG028528 AT2G31310.1 53.922 102 46 1 46 146 6 107 3.16e-33 117
MsaG028528 AT4G00220.1 59.596 99 39 1 50 147 20 118 1.17e-32 117
MsaG028528 AT2G45420.1 54.545 99 44 1 50 147 40 138 2.37e-31 114
MsaG028528 AT2G45410.1 54.545 99 44 1 50 147 19 117 1.17e-30 110
MsaG028528 AT2G42440.1 51.456 103 47 2 46 146 6 107 1.78e-30 111
MsaG028528 AT3G50510.1 45.714 105 57 0 46 150 11 115 8.05e-28 103
MsaG028528 AT3G50510.2 45.714 105 57 0 46 150 11 115 8.05e-28 103
MsaG028528 AT3G47870.1 39.496 119 65 1 33 151 29 140 4.75e-26 102
MsaG028528 AT5G35900.1 37.255 102 64 0 46 147 4 105 1.04e-21 87.8
MsaG028528 AT1G72980.1 38.462 104 64 0 44 147 10 113 3.98e-21 86.7
MsaG028528 AT3G13850.1 36.792 106 67 0 48 153 37 142 5.56e-21 87.4
MsaG028528 AT1G06280.1 39.362 94 57 0 48 141 25 118 2.45e-19 81.6
MsaG028528 AT4G22700.1 36.190 105 63 3 48 150 6 108 2.09e-15 70.9
MsaG028528 AT2G19820.1 33.708 89 58 1 47 134 12 100 1.20e-14 67.4
MsaG028528 AT5G15060.1 40.260 77 42 2 45 118 15 90 2.04e-11 59.3

Find 28 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAAGGGGTTACTGTGTTTA+AGG 0.163285 5:-63564281 None:intergenic
AGGTTAAGAGATCCTGTTTA+TGG 0.207855 5:+63564821 MsaT028528.1:CDS
CATCTTTATGGTCCAACTTC+TGG 0.211009 5:+63564253 MsaT028528.1:CDS
TGGTTTATGAAGCTAATTTA+AGG 0.230042 5:+63564801 MsaT028528.1:CDS
GCATCTGCTCTTTGTCCTTC+AGG 0.259282 5:-63564767 None:intergenic
CAATGTCACTAAATTGCTAT+TGG 0.302262 5:+63564417 MsaT028528.1:CDS
GCAGCTGTTCATAAAGTCTT+TGG 0.311665 5:+63564388 MsaT028528.1:CDS
AAACAATCAACAAGCATGTT+TGG 0.327582 5:+63563944 None:intergenic
ATGGGAAGGAAGCATCTTTA+TGG 0.328269 5:+63564241 MsaT028528.1:CDS
CCTTGTGAGTTTGCACTTGT+AGG 0.338717 5:-63564977 None:intergenic
GGGAGAAACTTCTTCTCAAA+TGG 0.345005 5:+63564222 MsaT028528.1:CDS
ATCTTTATGGTCCAACTTCT+GGG 0.351664 5:+63564254 MsaT028528.1:CDS
GTAGTTCAGCTTGTAAAGAT+TGG 0.372188 5:-63564880 None:intergenic
TATTTACCTGTCACTGTCTC+TGG 0.409777 5:-63563971 None:intergenic
GCACCCATGCATCCATAAAC+AGG 0.433076 5:-63564833 None:intergenic
TTTAAGGTTGTCCCAGAAGT+TGG 0.446561 5:-63564265 None:intergenic
GAAGGATTAACTAATACAAA+TGG 0.471601 5:-63567385 None:intergenic
GGAGAAACTTCTTCTCAAAT+GGG 0.481100 5:+63564223 MsaT028528.1:CDS
GGATGTCCAGAGACAGTGAC+AGG 0.566988 5:+63563965 MsaT028528.1:CDS
AATAGCTTACATGCAGCACA+AGG 0.568241 5:-63564298 None:intergenic
AGATCCTGTTTATGGATGCA+TGG 0.578296 5:+63564829 MsaT028528.1:CDS
AAACTTCTTCTCAAATGGGA+AGG 0.578669 5:+63564227 MsaT028528.1:CDS
AGCAGATGCAGCAAATAGCA+TGG 0.620064 5:+63564781 MsaT028528.1:CDS
CCTACAAGTGCAAACTCACA+AGG 0.625039 5:+63564977 MsaT028528.1:CDS
TAGCTTACATGCAGCACAAG+GGG 0.625764 5:-63564296 None:intergenic
GATCCTGTTTATGGATGCAT+GGG 0.637525 5:+63564830 MsaT028528.1:CDS
ATTGAGAAGAAGATGTGCTG+AGG 0.667195 5:+63564318 MsaT028528.1:CDS
ATAGCTTACATGCAGCACAA+GGG 0.685250 5:-63564297 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 63563959 63567401 63563959 ID=MsaG028528
Chr5 mRNA 63563959 63567401 63563959 ID=MsaT028528.1;Parent=MsaG028528
Chr5 exon 63563959 63563986 63563959 ID=MsaT028528.1.exon1;Parent=MsaT028528.1
Chr5 CDS 63563959 63563986 63563959 ID=cds.MsaT028528.1;Parent=MsaT028528.1
Chr5 exon 63564188 63564438 63564188 ID=MsaT028528.1.exon2;Parent=MsaT028528.1
Chr5 CDS 63564188 63564438 63564188 ID=cds.MsaT028528.1;Parent=MsaT028528.1
Chr5 exon 63564761 63564998 63564761 ID=MsaT028528.1.exon3;Parent=MsaT028528.1
Chr5 CDS 63564761 63564998 63564761 ID=cds.MsaT028528.1;Parent=MsaT028528.1
Chr5 exon 63567376 63567401 63567376 ID=MsaT028528.1.exon4;Parent=MsaT028528.1
Chr5 CDS 63567376 63567401 63567376 ID=cds.MsaT028528.1;Parent=MsaT028528.1
Gene Sequence

>MsaT028528.1

ATGTTTGGATGTCCAGAGACAGTGACAGAAAGATTAGATGAAATAGCAAAAATCAACTCAGAGGGAGAAACTTCTTCTCAAATGGGAAGGAAGCATCTTTATGGTCCAACTTCTGGGACAACCTTAAACACAGTAACCCCTTGTGCTGCATGTAAGCTATTGAGAAGAAGATGTGCTGAGGAATGTCCTTTCTCTCCTTATTTTTCACCACATGAGCCTCAAAAATTTGCAGCTGTTCATAAAGTCTTTGGTGCTAGCAATGTCACTAAATTGCTATTGGAGGTACCTGAAGGACAAAGAGCAGATGCAGCAAATAGCATGGTTTATGAAGCTAATTTAAGGTTAAGAGATCCTGTTTATGGATGCATGGGTGCAATATCATCATTACAACAACAAGTCCAATCTTTACAAGCTGAACTACATGCAGTAAGAACAGAGCTACTAAAATACAAATATAGAGAAGCAGCTAGTTTCATTTCTTCTCAAGTATCAATGCCTACAAGTGCAAACTCACAAGGAAAATGCTCCATTTGTATTAGTTAA
Protein sequence

>MsaT028528.1

MFGCPETVTERLDEIAKINSEGETSSQMGRKHLYGPTSGTTLNTVTPCAACKLLRRRCAEECPFSPYFSPHEPQKFAAVHKVFGASNVTKLLLEVPEGQRADAANSMVYEANLRLRDPVYGCMGAISSLQQQVQSLQAELHAVRTELLKYKYREAASFISSQVSMPTSANSQGKCSICIS*