AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015081

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015081 MtrunA17_Chr3g0114061 99.371 159 1 0 1 159 1 159 5.72e-118 329
MsaG015081 MtrunA17_Chr5g0437571 75.155 161 31 4 1 156 1 157 3.84e-81 237
MsaG015081 MtrunA17_Chr3g0106101 65.359 153 40 2 3 142 2 154 3.12e-69 207
MsaG015081 MtrunA17_Chr2g0311601 76.364 110 26 0 4 113 9 118 6.04e-59 180
MsaG015081 MtrunA17_Chr4g0043421 70.339 118 31 1 2 115 5 122 1.51e-56 175
MsaG015081 MtrunA17_Chr4g0030001 65.179 112 38 1 7 117 23 134 5.39e-50 159
MsaG015081 MtrunA17_Chr1g0200201 71.287 101 29 0 9 109 73 173 8.78e-49 157
MsaG015081 MtrunA17_Chr5g0438091 52.795 161 67 3 4 158 35 192 1.59e-48 155
MsaG015081 MtrunA17_Chr3g0129071 63.393 112 41 0 4 115 43 154 2.99e-47 153
MsaG015081 MtrunA17_Chr7g0227511 59.829 117 43 1 5 117 8 124 1.90e-46 149
MsaG015081 MtrunA17_Chr6g0449651 52.113 142 59 3 3 144 62 194 2.32e-46 150
MsaG015081 MtrunA17_Chr6g0449641 53.571 140 56 3 5 144 6 136 2.43e-46 148
MsaG015081 MtrunA17_Chr3g0117121 66.346 104 35 0 6 109 8 111 4.28e-46 149
MsaG015081 MtrunA17_Chr4g0058651 66.019 103 35 0 7 109 10 112 5.94e-46 148
MsaG015081 MtrunA17_Chr3g0115431 61.111 108 42 0 1 108 2 109 3.68e-45 147
MsaG015081 MtrunA17_Chr5g0432451 66.038 106 36 0 4 109 39 144 1.22e-42 141
MsaG015081 MtrunA17_Chr3g0113891 63.366 101 37 0 5 105 11 111 1.35e-42 139
MsaG015081 MtrunA17_Chr3g0097221 59.615 104 42 0 5 108 4 107 1.91e-42 142
MsaG015081 MtrunA17_Chr5g0402611 58.333 108 45 0 1 108 1 108 6.19e-42 142
MsaG015081 MtrunA17_Chr5g0437401 62.376 101 38 0 5 105 8 108 1.60e-41 137
MsaG015081 MtrunA17_Chr7g0260971 57.143 105 44 1 5 108 11 115 1.52e-37 128
MsaG015081 MtrunA17_Chr8g0353981 59.615 104 42 0 5 108 4 107 4.44e-37 127
MsaG015081 MtrunA17_Chr1g0184281 51.695 118 56 1 8 124 15 132 8.48e-37 125
MsaG015081 MtrunA17_Chr5g0444351 48.624 109 56 0 9 117 6 114 3.17e-36 122
MsaG015081 MtrunA17_Chr7g0245871 56.863 102 43 1 8 108 27 128 6.07e-36 124
MsaG015081 MtrunA17_Chr7g0225111 52.941 102 48 0 7 108 4 105 9.78e-36 120
MsaG015081 MtrunA17_Chr7g0261031 43.919 148 80 2 1 145 1 148 2.73e-35 122
MsaG015081 MtrunA17_Chr8g0351721 56.075 107 46 1 7 112 17 123 5.55e-35 121
MsaG015081 MtrunA17_Chr8g0351701 41.290 155 78 3 7 148 22 176 1.59e-34 120
MsaG015081 MtrunA17_Chr1g0184271 45.139 144 70 5 8 146 12 151 2.74e-34 120
MsaG015081 MtrunA17_Chr6g0460951 45.299 117 63 1 7 122 39 155 8.95e-34 118
MsaG015081 MtrunA17_Chr5g0435641 54.082 98 44 1 7 103 6 103 1.82e-33 116
MsaG015081 MtrunA17_Chr7g0245861 55.208 96 40 2 2 94 6 101 4.70e-30 106
MsaG015081 MtrunA17_Chr8g0374591 39.231 130 76 1 1 127 1 130 5.25e-30 106
MsaG015081 MtrunA17_Chr8g0374601 47.525 101 53 0 8 108 26 126 1.73e-29 108
MsaG015081 MtrunA17_Chr8g0374581 44.545 110 60 1 1 109 1 110 9.33e-28 103
MsaG015081 MtrunA17_Chr4g0059901 38.776 147 81 3 1 140 3 147 3.01e-27 102
MsaG015081 MtrunA17_Chr6g0460941 50.000 88 43 1 8 94 7 94 7.65e-27 97.1
MsaG015081 MtrunA17_Chr6g0452671 40.404 99 59 0 3 101 6 104 4.76e-26 98.2
MsaG015081 MtrunA17_Chr6g0452691 38.971 136 77 3 9 143 10 140 5.01e-26 97.4
MsaG015081 MtrunA17_Chr2g0326051 61.538 65 25 0 53 117 5 69 8.73e-23 87.4
MsaG015081 MtrunA17_Chr2g0330201 38.462 104 64 0 5 108 16 119 1.45e-22 90.9
MsaG015081 MtrunA17_Chr4g0040831 42.697 89 51 0 9 97 16 104 1.57e-22 89.0
MsaG015081 MtrunA17_Chr8g0342351 37.500 104 65 0 5 108 9 112 2.46e-22 89.7
MsaG015081 MtrunA17_Chr6g0452661 43.750 80 44 1 9 87 10 89 4.04e-22 89.0
MsaG015081 MtrunA17_Chr2g0326041 64.583 48 17 0 7 54 32 79 1.69e-19 77.8
MsaG015081 MtrunA17_Chr4g0046201 38.202 89 55 0 7 95 5 93 2.15e-19 82.0
MsaG015081 MtrunA17_Chr5g0439111 33.333 147 89 4 9 146 10 156 3.94e-19 80.9
MsaG015081 MtrunA17_Chr4g0055441 39.362 94 52 2 9 97 3 96 9.90e-19 77.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015081 AT2G30130.1 77.698 139 25 2 1 135 1 137 5.16e-73 218
MsaG015081 AT1G16530.1 67.544 114 36 1 3 115 9 122 2.69e-52 164
MsaG015081 AT1G07900.1 64.865 111 39 0 7 117 32 142 1.63e-50 160
MsaG015081 AT2G28500.1 65.138 109 38 0 7 115 54 162 6.65e-50 160
MsaG015081 AT1G31320.1 71.171 111 32 0 4 114 9 119 9.64e-50 157
MsaG015081 AT2G30340.1 64.151 106 38 0 4 109 48 153 2.34e-46 152
MsaG015081 AT2G30340.2 64.151 106 38 0 4 109 49 154 2.59e-46 152
MsaG015081 AT3G27650.1 62.385 109 41 0 1 109 32 140 4.04e-46 148
MsaG015081 AT5G63090.4 66.990 103 34 0 6 108 9 111 5.89e-46 149
MsaG015081 AT5G63090.3 66.990 103 34 0 6 108 9 111 5.89e-46 149
MsaG015081 AT5G63090.2 66.990 103 34 0 6 108 9 111 5.89e-46 149
MsaG015081 AT5G63090.1 66.990 103 34 0 6 108 9 111 5.89e-46 149
MsaG015081 AT2G40470.2 59.542 131 51 1 4 132 16 146 1.79e-45 148
MsaG015081 AT2G40470.1 59.542 131 51 1 4 132 41 171 3.62e-45 148
MsaG015081 AT3G26660.1 62.264 106 40 0 9 114 6 111 4.38e-45 144
MsaG015081 AT3G26620.1 62.264 106 40 0 9 114 6 111 5.57e-45 144
MsaG015081 AT2G23660.2 56.731 104 45 0 6 109 3 106 1.99e-42 143
MsaG015081 AT2G23660.3 56.731 104 45 0 6 109 3 106 1.99e-42 143
MsaG015081 AT2G23660.1 56.731 104 45 0 6 109 3 106 1.99e-42 143
MsaG015081 AT3G11090.1 56.000 125 53 1 5 127 8 132 3.06e-42 138
MsaG015081 AT5G66870.1 52.000 125 60 0 4 128 3 127 1.68e-41 141
MsaG015081 AT1G65620.1 61.905 105 40 0 4 108 5 109 5.91e-39 131
MsaG015081 AT1G65620.4 61.905 105 40 0 4 108 5 109 5.91e-39 131
MsaG015081 AT1G65620.3 61.905 105 40 0 4 108 5 109 5.91e-39 131
MsaG015081 AT1G65620.5 61.905 105 40 0 4 108 5 109 5.91e-39 131
MsaG015081 AT1G65620.2 61.905 105 40 0 4 108 5 109 5.91e-39 131
MsaG015081 AT4G00210.1 54.310 116 49 2 1 112 1 116 2.34e-37 127
MsaG015081 AT3G03760.1 55.769 104 45 1 7 109 50 153 8.03e-37 128
MsaG015081 AT2G42430.1 57.547 106 44 1 4 108 11 116 9.24e-37 127
MsaG015081 AT2G45410.1 57.282 103 43 1 11 112 19 121 2.19e-34 119
MsaG015081 AT2G42440.1 46.269 134 66 3 7 139 6 134 3.35e-34 120
MsaG015081 AT3G58190.1 54.639 97 43 1 8 103 11 107 3.67e-33 117
MsaG015081 AT2G31310.1 50.926 108 51 2 1 107 1 107 1.70e-32 114
MsaG015081 AT2G45420.1 51.923 104 49 1 11 113 40 143 1.79e-32 116
MsaG015081 AT4G00220.1 52.885 104 48 1 11 113 20 123 4.36e-32 114
MsaG015081 AT3G50510.1 43.902 123 67 1 6 126 10 132 2.44e-30 109
MsaG015081 AT3G50510.2 43.902 123 67 1 6 126 10 132 2.44e-30 109
MsaG015081 AT5G06080.1 51.376 109 47 2 7 114 6 109 7.64e-30 107
MsaG015081 AT5G35900.1 36.429 140 71 2 9 148 6 127 6.48e-26 98.2
MsaG015081 AT1G72980.1 38.525 122 74 1 3 123 8 129 5.10e-25 95.9
MsaG015081 AT3G47870.1 37.037 108 68 0 1 108 29 136 2.72e-24 96.3
MsaG015081 AT3G13850.1 35.537 121 74 1 9 125 37 157 2.50e-23 92.8
MsaG015081 AT1G06280.1 49.351 77 39 0 9 85 25 101 8.64e-21 84.7
MsaG015081 AT4G22700.1 35.821 134 72 4 9 141 6 126 3.56e-18 77.8
MsaG015081 AT2G19820.1 38.542 96 58 1 7 101 11 106 7.67e-17 72.4
MsaG015081 AT5G15060.1 40.000 80 44 2 3 79 12 90 5.08e-14 65.5
MsaG015081 AT1G36000.1 29.885 87 61 0 8 94 9 95 1.85e-12 61.2
MsaG015081 AT3G27940.3 36.364 66 42 0 7 72 4 69 3.13e-11 58.5
MsaG015081 AT3G27940.1 36.364 66 42 0 7 72 4 69 3.13e-11 58.5
MsaG015081 AT3G27940.2 36.364 66 42 0 7 72 4 69 3.13e-11 58.5

Find 20 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTAGCACAACGGCGTCTA+AGG 0.285930 3:-82449982 None:intergenic
GCATCAGCTCTTTGTTGAAT+AGG 0.314081 3:-82450570 None:intergenic
GGATCATGTGAAGGGAAATA+AGG 0.350330 3:-82450019 None:intergenic
AGAGTGAAAGACCCTGTTTA+TGG 0.387679 3:+82450624 MsaT015081.1:CDS
GTTGATCATCATGTTTCATC+TGG 0.388561 3:-82450734 None:intergenic
GCTCCAACACAACCATAAAC+AGG 0.400328 3:-82450636 None:intergenic
GCATTTGAAGCTCAGAAACT+TGG 0.418459 3:-82450677 None:intergenic
TGAATTACATTGCTTGAAGA+AGG 0.450118 3:-82450825 None:intergenic
GACCCTGTTTATGGTTGTGT+TGG 0.486001 3:+82450633 MsaT015081.1:CDS
GATCATAAGATTTATGATCA+AGG 0.495019 3:-82450782 None:intergenic
CCTTAGACGCCGTTGTGCTA+AGG 0.517412 3:+82449982 MsaT015081.1:CDS
GAAGGAAAGTTGAAATACTG+AGG 0.552181 3:-82450807 None:intergenic
ATCATAAGATTTATGATCAA+GGG 0.554510 3:-82450781 None:intergenic
AAAATTTGCAATTGTTCACA+AGG 0.564865 3:+82450045 MsaT015081.1:CDS
CAACGTTAGCAAAATGCTCC+AGG 0.569502 3:+82450081 MsaT015081.1:CDS
AGGAGTTTGCATGAAGCACA+AGG 0.592427 3:-82449962 None:intergenic
GAGTTTGCATGAAGCACAAG+GGG 0.629954 3:-82449960 None:intergenic
CTCCAACACAACCATAAACA+GGG 0.640494 3:-82450635 None:intergenic
GGAGTTTGCATGAAGCACAA+GGG 0.671143 3:-82449961 None:intergenic
AGATACAATCCTTAGCACAA+CGG 0.718268 3:-82449991 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 82449941 82450881 82449941 ID=MsaG015081
Chr3 mRNA 82449941 82450881 82449941 ID=MsaT015081.1;Parent=MsaG015081
Chr3 exon 82449941 82450102 82449941 ID=MsaT015081.1.exon1;Parent=MsaT015081.1
Chr3 CDS 82449941 82450102 82449941 ID=cds.MsaT015081.1;Parent=MsaT015081.1
Chr3 exon 82450564 82450881 82450564 ID=MsaT015081.1.exon2;Parent=MsaT015081.1
Chr3 CDS 82450564 82450881 82450564 ID=cds.MsaT015081.1;Parent=MsaT015081.1
Gene Sequence

>MsaT015081.1

ATGGGTGGTAATACTACTTCCCCTTGTGCTTCATGCAAACTCCTTAGACGCCGTTGTGCTAAGGATTGTATCTTTGCTCCTTATTTCCCTTCACATGATCCTAAAAAATTTGCAATTGTTCACAAGGTTTTTGGTGCCAGCAACGTTAGCAAAATGCTCCAGGAACTTCCTATTCAACAAAGAGCTGATGCAGTAAGCAGTTTAGTATATGAAGCGAATGCAAGAGTGAAAGACCCTGTTTATGGTTGTGTTGGAGCAATATCATACCTTCAAAACCAAGTTTCTGAGCTTCAAATGCAGCTTGCAGTAGCACAAGCAGAAATACTTTGCATCCAGATGAAACATGATGATCAACCTCTAATGCAAAATCAAGAAATAGCCCTTGATCATAAATCTTATGATCTTCCTCAGTATTTCAACTTTCCTTCTTCAAGCAATGTAATTCATCATGATTCTTTCTCAAGAGAGAGAATTTTTTGA
Protein sequence

>MsaT015081.1

MGGNTTSPCASCKLLRRRCAKDCIFAPYFPSHDPKKFAIVHKVFGASNVSKMLQELPIQQRADAVSSLVYEANARVKDPVYGCVGAISYLQNQVSELQMQLAVAQAEILCIQMKHDDQPLMQNQEIALDHKSYDLPQYFNFPSSSNVIHHDSFSRERIF*