AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015066

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015066 MtrunA17_Chr3g0113891 97.297 185 5 0 1 185 1 185 1.64e-136 379
MsaG015066 MtrunA17_Chr5g0437401 73.077 182 44 1 4 185 1 177 1.32e-89 259
MsaG015066 MtrunA17_Chr7g0227511 64.151 106 38 0 11 116 8 113 5.55e-46 149
MsaG015066 MtrunA17_Chr6g0449641 65.094 106 37 0 11 116 6 111 1.73e-45 147
MsaG015066 MtrunA17_Chr5g0437571 64.078 103 37 0 12 114 4 106 5.03e-44 144
MsaG015066 MtrunA17_Chr3g0106101 52.000 125 59 1 12 136 5 128 2.31e-43 142
MsaG015066 MtrunA17_Chr3g0114061 62.500 104 39 0 11 114 5 108 2.83e-43 141
MsaG015066 MtrunA17_Chr4g0058651 45.087 173 72 4 12 184 9 158 2.93e-43 142
MsaG015066 MtrunA17_Chr4g0043421 46.667 150 77 1 11 160 12 158 4.78e-43 141
MsaG015066 MtrunA17_Chr3g0117121 61.905 105 40 0 12 116 8 112 6.31e-43 142
MsaG015066 MtrunA17_Chr6g0449651 61.261 111 40 1 6 116 62 169 2.07e-42 140
MsaG015066 MtrunA17_Chr2g0311601 59.434 106 43 0 6 111 5 110 8.80e-42 137
MsaG015066 MtrunA17_Chr3g0115431 61.905 105 40 0 11 115 6 110 1.59e-41 139
MsaG015066 MtrunA17_Chr5g0438091 47.826 138 70 1 11 148 36 171 2.18e-41 138
MsaG015066 MtrunA17_Chr5g0402611 56.303 119 52 0 11 129 5 123 2.40e-40 139
MsaG015066 MtrunA17_Chr3g0097221 60.000 105 42 0 11 115 4 108 2.96e-40 138
MsaG015066 MtrunA17_Chr8g0353981 55.725 131 51 2 11 134 4 134 2.48e-39 134
MsaG015066 MtrunA17_Chr3g0129071 55.046 109 49 0 15 123 48 156 1.59e-37 129
MsaG015066 MtrunA17_Chr5g0432451 55.263 114 51 0 15 128 44 157 1.85e-36 126
MsaG015066 MtrunA17_Chr7g0260971 48.276 116 59 1 1 115 1 116 2.46e-34 120
MsaG015066 MtrunA17_Chr1g0184281 50.435 115 55 2 1 113 1 115 2.76e-34 120
MsaG015066 MtrunA17_Chr1g0200201 44.000 150 73 3 15 158 73 217 3.33e-34 120
MsaG015066 MtrunA17_Chr4g0030001 56.701 97 41 1 13 108 23 119 4.44e-34 119
MsaG015066 MtrunA17_Chr8g0351701 39.752 161 93 3 15 174 24 181 5.11e-34 120
MsaG015066 MtrunA17_Chr8g0351721 49.558 113 56 1 4 115 8 120 7.73e-34 119
MsaG015066 MtrunA17_Chr7g0245871 51.485 101 48 1 15 114 28 128 4.76e-33 118
MsaG015066 MtrunA17_Chr6g0460951 39.716 141 83 2 15 153 41 181 1.15e-32 116
MsaG015066 MtrunA17_Chr7g0261031 49.541 109 53 2 11 117 5 113 3.97e-32 115
MsaG015066 MtrunA17_Chr7g0225111 44.660 103 57 0 13 115 4 106 3.13e-31 109
MsaG015066 MtrunA17_Chr1g0184271 48.544 103 52 1 15 116 13 115 7.84e-31 112
MsaG015066 MtrunA17_Chr5g0435641 45.283 106 57 1 12 116 5 110 1.36e-30 110
MsaG015066 MtrunA17_Chr5g0444351 43.564 101 57 0 15 115 6 106 2.29e-29 105
MsaG015066 MtrunA17_Chr8g0374601 48.039 102 53 0 15 116 27 128 2.09e-27 104
MsaG015066 MtrunA17_Chr6g0460941 47.126 87 45 1 15 100 8 94 1.67e-24 91.7
MsaG015066 MtrunA17_Chr7g0245861 46.939 98 49 2 6 100 4 101 1.99e-24 93.2
MsaG015066 MtrunA17_Chr8g0374591 44.118 102 57 0 15 116 9 110 2.55e-24 92.4
MsaG015066 MtrunA17_Chr4g0059901 39.815 108 65 0 11 118 7 114 3.58e-24 95.5
MsaG015066 MtrunA17_Chr6g0452671 34.266 143 86 2 11 152 8 143 3.46e-22 89.0
MsaG015066 MtrunA17_Chr6g0452661 37.273 110 68 1 10 118 5 114 7.16e-22 89.4
MsaG015066 MtrunA17_Chr8g0374581 42.718 103 58 1 15 116 9 111 1.75e-21 87.8
MsaG015066 MtrunA17_Chr4g0040831 34.188 117 77 0 14 130 15 131 4.98e-21 85.9
MsaG015066 MtrunA17_Chr2g0330201 33.028 109 73 0 11 119 16 124 1.24e-20 86.7
MsaG015066 MtrunA17_Chr6g0452691 36.364 110 69 1 10 118 5 114 2.16e-20 84.0
MsaG015066 MtrunA17_Chr8g0342351 33.333 108 72 0 11 118 9 116 6.96e-20 84.0
MsaG015066 MtrunA17_Chr5g0439111 29.814 161 97 4 10 165 5 154 4.92e-19 81.3
MsaG015066 MtrunA17_Chr4g0055441 32.231 121 73 3 15 130 3 119 1.19e-18 78.6
MsaG015066 MtrunA17_Chr2g0326051 53.571 56 26 0 59 114 5 60 4.20e-14 65.9
MsaG015066 MtrunA17_Chr4g0046201 31.818 88 60 0 13 100 5 92 6.65e-14 68.2
MsaG015066 MtrunA17_Chr2g0326041 57.447 47 20 0 13 59 32 78 1.29e-13 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015066 AT3G11090.1 78.378 111 24 0 4 114 1 111 4.57e-62 190
MsaG015066 AT3G27650.1 64.151 106 38 0 11 116 36 141 2.14e-44 145
MsaG015066 AT5G66870.1 62.857 105 39 0 11 115 4 108 6.85e-43 145
MsaG015066 AT5G63090.4 52.239 134 60 1 12 145 9 138 1.14e-42 141
MsaG015066 AT5G63090.3 52.239 134 60 1 12 145 9 138 1.14e-42 141
MsaG015066 AT5G63090.2 52.239 134 60 1 12 145 9 138 1.14e-42 141
MsaG015066 AT5G63090.1 52.239 134 60 1 12 145 9 138 1.14e-42 141
MsaG015066 AT2G23660.2 60.577 104 41 0 11 114 2 105 1.54e-41 142
MsaG015066 AT2G23660.3 60.577 104 41 0 11 114 2 105 1.54e-41 142
MsaG015066 AT2G23660.1 60.577 104 41 0 11 114 2 105 1.54e-41 142
MsaG015066 AT2G30130.1 59.615 104 42 0 11 114 5 108 4.96e-41 137
MsaG015066 AT2G30340.2 55.263 114 50 1 15 128 54 166 1.74e-38 133
MsaG015066 AT2G30340.1 55.263 114 50 1 15 128 53 165 2.06e-38 133
MsaG015066 AT1G16530.1 47.887 142 66 3 10 144 10 150 2.24e-38 129
MsaG015066 AT1G65620.1 55.652 115 51 0 11 125 6 120 7.62e-38 129
MsaG015066 AT1G65620.4 55.652 115 51 0 11 125 6 120 7.62e-38 129
MsaG015066 AT1G65620.3 55.652 115 51 0 11 125 6 120 7.62e-38 129
MsaG015066 AT1G65620.5 55.652 115 51 0 11 125 6 120 7.62e-38 129
MsaG015066 AT1G65620.2 55.652 115 51 0 11 125 6 120 7.62e-38 129
MsaG015066 AT2G40470.2 53.333 120 56 0 15 134 21 140 2.76e-37 128
MsaG015066 AT2G40470.1 53.333 120 56 0 15 134 46 165 5.45e-37 128
MsaG015066 AT1G07900.1 58.586 99 41 0 13 111 32 130 8.41e-37 126
MsaG015066 AT1G31320.1 60.000 90 36 0 11 100 10 99 9.09e-37 125
MsaG015066 AT2G28500.1 58.333 96 40 0 13 108 54 149 1.81e-35 124
MsaG015066 AT4G00210.1 52.336 107 50 1 15 120 12 118 1.45e-34 121
MsaG015066 AT3G03760.1 48.649 111 56 1 13 122 50 160 3.47e-34 122
MsaG015066 AT2G42430.1 47.500 120 62 1 5 123 6 125 3.90e-33 119
MsaG015066 AT3G26660.1 48.515 101 52 0 15 115 6 106 8.04e-33 114
MsaG015066 AT3G26620.1 48.515 101 52 0 15 115 6 106 9.57e-33 114
MsaG015066 AT4G00220.1 53.000 100 46 1 17 115 20 119 2.21e-32 116
MsaG015066 AT2G45420.1 50.000 100 49 1 17 115 40 139 4.50e-32 116
MsaG015066 AT3G58190.1 39.597 149 78 4 15 162 12 149 6.05e-32 115
MsaG015066 AT2G42440.1 39.130 138 75 2 11 147 4 133 1.15e-30 112
MsaG015066 AT2G45410.1 51.000 100 48 1 17 115 19 118 4.86e-30 109
MsaG015066 AT5G06080.1 45.631 103 55 1 13 114 6 108 4.86e-30 108
MsaG015066 AT2G31310.1 43.396 106 59 1 12 116 5 110 3.36e-29 107
MsaG015066 AT3G50510.1 46.226 106 57 0 10 115 8 113 1.05e-27 103
MsaG015066 AT3G50510.2 46.226 106 57 0 10 115 8 113 1.05e-27 103
MsaG015066 AT5G35900.1 35.971 139 87 1 11 149 2 138 7.33e-27 101
MsaG015066 AT3G13850.1 33.793 145 88 2 14 158 36 172 2.24e-23 94.0
MsaG015066 AT1G72980.1 33.846 130 86 0 11 140 10 139 8.46e-22 88.6
MsaG015066 AT3G47870.1 34.862 109 71 0 11 119 33 141 1.97e-19 84.3
MsaG015066 AT4G22700.1 39.252 107 61 3 11 115 2 106 1.93e-18 79.3
MsaG015066 AT1G06280.1 44.872 78 43 0 14 91 24 101 5.46e-18 78.2
MsaG015066 AT5G15060.1 39.474 76 42 2 13 85 16 90 2.57e-12 62.0
MsaG015066 AT2G19820.1 36.905 84 52 1 15 97 13 96 4.20e-12 60.8

Find 27 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTAAAGTTCACAAAGTATT+TGG 0.136847 3:-82292142 MsaT015066.1:CDS
AGGCTTAAAGACCCAGTTTA+TGG 0.242004 3:-82292031 MsaT015066.1:CDS
GAACCAATGCATCCATAAAC+TGG 0.317210 3:+82292019 None:intergenic
GATGGAACTTCAACATGATT+TGG 0.337444 3:-82291972 MsaT015066.1:CDS
AGAGGGGATCAAAATGTATA+AGG 0.366846 3:+82291728 None:intergenic
AAGTGAAATGAAAGGCATAA+AGG 0.382977 3:-82292278 None:intergenic
ATTTCTTGCACTCGTTAGAA+TGG 0.427400 3:+82292167 None:intergenic
GACCCAGTTTATGGATGCAT+TGG 0.436697 3:-82292022 MsaT015066.1:CDS
AGTGAAATGAAAGGCATAAA+GGG 0.450119 3:-82292277 None:intergenic
GAAGTGGAAAACTCAGGAAA+TGG 0.459553 3:+82291836 None:intergenic
TAAGGTGCAAATAAGCAATC+TGG 0.484939 3:+82292193 None:intergenic
CTTCCTTTGCAACATAGCTA+TGG 0.497960 3:+82291997 None:intergenic
ACATGATTTGGCCATTGCTA+AGG 0.501000 3:-82291960 MsaT015066.1:CDS
CACTCGTTAGAATGGAAGTA+AGG 0.514845 3:+82292175 None:intergenic
ATCATTGAGATCGTTAGAAG+TGG 0.559617 3:+82291820 None:intergenic
AATTACAGAAGGAGTTGTTG+TGG 0.575137 3:+82291889 None:intergenic
TATGTTGCAAAGGAAGATGA+TGG 0.575914 3:-82291990 MsaT015066.1:CDS
GTTCCATAGCTATGTTGCAA+AGG 0.579187 3:-82292000 MsaT015066.1:CDS
AGCAAGACGTTCCTTAGCAA+TGG 0.581078 3:+82291949 None:intergenic
TGCAAACTATCAATTACAGA+AGG 0.600990 3:+82291878 None:intergenic
TCGTTAGAAGTGGAAAACTC+AGG 0.603635 3:+82291830 None:intergenic
TTGCTTATGAAGCAGAAGCA+AGG 0.610245 3:-82292051 MsaT015066.1:CDS
TTTGGGTCGAAATGAAACAA+TGG 0.611284 3:-82291768 MsaT015066.1:CDS
AACCAATGCATCCATAAACT+GGG 0.613188 3:+82292020 None:intergenic
GTGGAAAACTCAGGAAATGG+AGG 0.620928 3:+82291839 None:intergenic
GTGCACACAAGTGAAATGAA+AGG 0.632849 3:-82292286 None:intergenic
GCACAAGATGAGCTTGAACG+TGG 0.651989 3:+82292247 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 82291736 82292293 82291736 ID=MsaG015066
Chr3 mRNA 82291736 82292293 82291736 ID=MsaT015066.1;Parent=MsaG015066
Chr3 exon 82291736 82292293 82291736 ID=MsaT015066.1.exon1;Parent=MsaT015066.1
Chr3 CDS 82291736 82292293 82291736 ID=cds.MsaT015066.1;Parent=MsaT015066.1
Gene Sequence

>MsaT015066.1

ATGAAAGGCATAAAGGGTTATGAGCCACGTTCAAGCTCATCTTGTGCAGCTTGCAAATTATTGAAAAGAAGATGCACACCAGATTGCTTATTTGCACCTTACTTCCATTCTAACGAGTGCAAGAAATTTGCTAAAGTTCACAAAGTATTTGGAGCAAGCAATGTTAGCAAGATACTCATTGAAGTACCAGAAAAACAAAGAGAAGATACAGTGAATTCTCTTGCTTATGAAGCAGAAGCAAGGCTTAAAGACCCAGTTTATGGATGCATTGGTTCCATAGCTATGTTGCAAAGGAAGATGATGGAACTTCAACATGATTTGGCCATTGCTAAGGAACGTCTTGCTCGCTGTCGCGCTGTTGCTGCAGCTGCTACAATCACAACCACAACAACTCCTTCTGTAATTGATAGTTTGCATTCTGATGTTACTTTGCCTCCATTTCCTGAGTTTTCCACTTCTAACGATCTCAATGATATCTTTTGTCATGGCTCTTCTTCGCAATTTTTGGGTCGAAATGAAACAATGGATGATTTCAATCAAATTCCTTATACATTTTGA
Protein sequence

>MsaT015066.1

MKGIKGYEPRSSSSCAACKLLKRRCTPDCLFAPYFHSNECKKFAKVHKVFGASNVSKILIEVPEKQREDTVNSLAYEAEARLKDPVYGCIGSIAMLQRKMMELQHDLAIAKERLARCRAVAAAATITTTTTPSVIDSLHSDVTLPPFPEFSTSNDLNDIFCHGSSSQFLGRNETMDDFNQIPYTF*