AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042387

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042387 MtrunA17_Chr8g0351721 98.148 216 4 0 1 216 1 216 1.26e-159 439
MsaG042387 MtrunA17_Chr8g0351701 54.455 202 68 5 17 204 22 213 1.70e-64 199
MsaG042387 MtrunA17_Chr7g0245871 76.471 102 24 0 18 119 27 128 4.71e-55 176
MsaG042387 MtrunA17_Chr7g0245861 84.694 98 13 2 10 105 4 101 3.59e-54 170
MsaG042387 MtrunA17_Chr7g0260971 53.659 164 59 1 9 155 5 168 1.07e-52 169
MsaG042387 MtrunA17_Chr1g0184271 50.955 157 67 2 18 164 12 168 1.94e-50 163
MsaG042387 MtrunA17_Chr7g0261031 55.063 158 58 5 16 168 6 155 2.98e-49 160
MsaG042387 MtrunA17_Chr1g0184281 43.750 208 100 3 9 213 6 199 1.17e-46 153
MsaG042387 MtrunA17_Chr6g0460951 51.572 159 68 4 18 168 40 197 2.53e-44 147
MsaG042387 MtrunA17_Chr5g0435641 59.434 106 43 0 16 121 5 110 2.60e-43 144
MsaG042387 MtrunA17_Chr2g0311601 54.701 117 52 1 7 123 2 117 1.60e-39 133
MsaG042387 MtrunA17_Chr5g0437571 52.846 123 54 2 15 137 3 121 5.90e-38 129
MsaG042387 MtrunA17_Chr4g0043421 55.455 110 47 2 9 117 5 113 4.78e-37 127
MsaG042387 MtrunA17_Chr3g0106101 51.220 123 57 2 15 135 4 125 4.61e-36 125
MsaG042387 MtrunA17_Chr7g0227511 59.804 102 40 1 18 119 11 111 5.07e-36 124
MsaG042387 MtrunA17_Chr4g0058651 54.839 124 50 2 16 139 9 126 6.76e-36 125
MsaG042387 MtrunA17_Chr3g0117121 59.804 102 40 1 18 119 10 110 1.31e-35 124
MsaG042387 MtrunA17_Chr5g0437401 43.243 148 76 2 8 148 1 147 3.46e-35 122
MsaG042387 MtrunA17_Chr3g0114061 56.075 107 46 1 17 123 7 112 6.18e-35 121
MsaG042387 MtrunA17_Chr6g0449641 54.717 106 47 1 18 123 9 113 2.20e-34 119
MsaG042387 MtrunA17_Chr5g0438091 50.435 115 56 1 18 132 39 152 2.61e-34 121
MsaG042387 MtrunA17_Chr5g0402611 52.542 118 49 2 18 129 8 124 2.61e-33 121
MsaG042387 MtrunA17_Chr3g0113891 50.459 109 53 1 8 116 4 111 3.00e-33 118
MsaG042387 MtrunA17_Chr3g0129071 56.863 102 43 1 18 119 47 147 1.27e-32 117
MsaG042387 MtrunA17_Chr3g0115431 55.140 107 47 1 15 121 6 111 2.20e-32 117
MsaG042387 MtrunA17_Chr6g0449651 53.846 104 47 1 16 119 65 167 1.15e-31 114
MsaG042387 MtrunA17_Chr3g0097221 50.893 112 54 1 18 129 7 117 2.72e-30 113
MsaG042387 MtrunA17_Chr4g0030001 42.763 152 71 4 17 153 23 173 4.21e-30 110
MsaG042387 MtrunA17_Chr6g0460941 57.955 88 37 0 18 105 7 94 1.28e-29 105
MsaG042387 MtrunA17_Chr1g0200201 50.962 104 50 1 19 122 73 175 2.07e-29 109
MsaG042387 MtrunA17_Chr8g0353981 53.043 115 53 1 18 132 7 120 1.30e-28 107
MsaG042387 MtrunA17_Chr5g0432451 54.386 114 51 1 6 119 31 143 3.51e-28 106
MsaG042387 MtrunA17_Chr5g0444351 44.231 104 57 1 17 120 4 106 8.66e-25 95.1
MsaG042387 MtrunA17_Chr7g0225111 40.196 102 60 1 19 120 6 106 2.82e-22 87.8
MsaG042387 MtrunA17_Chr8g0374601 43.689 103 57 1 18 120 26 127 2.42e-21 89.4
MsaG042387 MtrunA17_Chr4g0059901 39.640 111 62 2 9 119 5 110 1.04e-19 84.7
MsaG042387 MtrunA17_Chr8g0374591 41.284 109 63 1 12 120 2 109 1.05e-19 81.3
MsaG042387 MtrunA17_Chr6g0452671 34.722 144 82 3 19 154 12 151 3.68e-19 82.0
MsaG042387 MtrunA17_Chr8g0342351 39.048 105 63 1 19 123 13 116 4.38e-18 80.1
MsaG042387 MtrunA17_Chr6g0452691 36.691 139 77 4 14 143 5 141 9.43e-18 77.8
MsaG042387 MtrunA17_Chr4g0055441 33.793 145 87 3 19 155 3 146 4.11e-17 75.5
MsaG042387 MtrunA17_Chr4g0040831 40.426 94 55 1 19 112 16 108 5.81e-17 75.9
MsaG042387 MtrunA17_Chr2g0330201 40.426 94 55 1 19 112 20 112 6.77e-17 77.4
MsaG042387 MtrunA17_Chr6g0452661 34.951 103 65 2 19 120 10 111 9.69e-16 73.6
MsaG042387 MtrunA17_Chr8g0374581 39.806 103 60 2 18 119 8 109 8.99e-15 70.5
MsaG042387 MtrunA17_Chr2g0326051 51.667 60 29 0 64 123 5 64 1.08e-12 62.8
MsaG042387 MtrunA17_Chr5g0439111 35.922 103 64 2 19 120 10 111 2.71e-12 63.9
MsaG042387 MtrunA17_Chr2g0326041 50.000 48 23 1 17 64 32 78 1.61e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042387 AT4G00210.1 54.464 224 79 3 8 214 1 218 1.01e-75 228
MsaG042387 AT2G45410.1 55.440 193 59 4 21 210 19 187 1.30e-63 196
MsaG042387 AT2G45420.1 76.699 103 24 0 21 123 40 142 5.66e-55 176
MsaG042387 AT4G00220.1 51.256 199 65 4 21 201 20 204 1.62e-54 174
MsaG042387 AT3G03760.1 74.510 102 26 0 18 119 51 152 5.13e-49 161
MsaG042387 AT3G58190.1 61.157 121 45 1 18 138 11 129 7.13e-49 159
MsaG042387 AT2G42430.1 63.158 114 42 0 10 123 7 120 5.54e-48 158
MsaG042387 AT2G42440.1 56.489 131 52 3 16 143 5 133 1.19e-47 157
MsaG042387 AT5G06080.1 61.538 104 40 0 16 119 5 108 2.00e-45 149
MsaG042387 AT2G31310.1 58.559 111 44 1 16 126 5 113 2.43e-43 144
MsaG042387 AT2G30130.1 56.881 109 46 1 15 123 5 112 1.73e-36 127
MsaG042387 AT5G63090.4 61.165 103 39 1 18 120 11 112 2.50e-36 126
MsaG042387 AT5G63090.3 61.165 103 39 1 18 120 11 112 2.50e-36 126
MsaG042387 AT5G63090.2 61.165 103 39 1 18 120 11 112 2.50e-36 126
MsaG042387 AT5G63090.1 61.165 103 39 1 18 120 11 112 2.50e-36 126
MsaG042387 AT3G27650.1 57.843 102 42 1 18 119 39 139 2.39e-35 123
MsaG042387 AT5G66870.1 50.000 142 60 3 18 149 7 147 7.91e-33 120
MsaG042387 AT1G07900.1 39.744 156 89 2 17 168 32 186 1.33e-32 117
MsaG042387 AT1G16530.1 39.623 159 86 3 9 166 5 154 2.66e-32 115
MsaG042387 AT1G31320.1 53.535 99 45 1 7 105 2 99 3.16e-32 115
MsaG042387 AT3G11090.1 48.182 110 56 1 10 119 3 111 2.47e-31 112
MsaG042387 AT2G28500.1 50.943 106 51 1 18 123 55 159 4.63e-31 114
MsaG042387 AT2G30340.1 49.153 118 59 1 18 135 52 168 1.10e-30 114
MsaG042387 AT2G30340.2 49.153 118 59 1 18 135 53 169 1.15e-30 114
MsaG042387 AT3G26660.1 47.619 105 54 1 19 123 6 109 3.02e-30 108
MsaG042387 AT3G26620.1 47.619 105 54 1 19 123 6 109 4.91e-30 108
MsaG042387 AT2G23660.2 49.515 103 51 1 18 120 5 106 8.46e-28 107
MsaG042387 AT2G23660.3 49.515 103 51 1 18 120 5 106 8.46e-28 107
MsaG042387 AT2G23660.1 49.515 103 51 1 18 120 5 106 8.46e-28 107
MsaG042387 AT1G65620.1 55.455 110 48 1 18 127 9 117 8.58e-28 104
MsaG042387 AT1G65620.4 55.455 110 48 1 18 127 9 117 8.58e-28 104
MsaG042387 AT1G65620.3 55.455 110 48 1 18 127 9 117 8.58e-28 104
MsaG042387 AT1G65620.5 55.455 110 48 1 18 127 9 117 8.58e-28 104
MsaG042387 AT1G65620.2 55.455 110 48 1 18 127 9 117 8.58e-28 104
MsaG042387 AT2G40470.2 58.824 102 41 1 18 119 20 120 1.33e-27 104
MsaG042387 AT2G40470.1 58.824 102 41 1 18 119 45 145 1.48e-27 104
MsaG042387 AT3G50510.1 42.982 114 64 1 18 131 12 124 1.68e-24 96.3
MsaG042387 AT3G50510.2 42.982 114 64 1 18 131 12 124 1.68e-24 96.3
MsaG042387 AT1G72980.1 40.336 119 62 3 19 137 14 123 1.07e-18 81.3
MsaG042387 AT3G13850.1 40.196 102 60 1 19 120 37 137 5.05e-18 80.5
MsaG042387 AT5G35900.1 36.538 104 65 1 19 122 6 108 1.97e-17 77.8
MsaG042387 AT3G47870.1 33.333 108 69 2 14 119 30 136 2.55e-16 76.6
MsaG042387 AT1G06280.1 44.000 75 41 1 19 93 25 98 8.70e-15 70.5

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGATGGAGCTAGCGATAT+TGG 0.266369 8:-21145921 None:intergenic
TTGAGAAGAAAGTGTGTAAA+AGG 0.270115 8:+21139639 MsaT042387.1:CDS
AGGGCTAGAGACCCTGTTTA+TGG 0.285999 8:+21139822 MsaT042387.1:CDS
CCTTGGTCTGAATCAAAATA+TGG 0.327800 8:-21139675 None:intergenic
GGTGAAGAGCTTTGAGGGTT+TGG 0.329428 8:-21145945 None:intergenic
CTTTGAGGGTTTGGAAGAGA+TGG 0.383095 8:-21145936 None:intergenic
TGAGCAACACAACCATAAAC+AGG 0.389890 8:-21139834 None:intergenic
GAGATGGAGCTAGCGATATT+GGG 0.399594 8:-21145920 None:intergenic
GCAGCAGTTCATAAAGTGTT+TGG 0.414624 8:+21139711 MsaT042387.1:CDS
GGCGCAGGTTATGAGCTTGC+AGG 0.416172 8:+21145851 MsaT042387.1:intron
GCGCTGCATTGTCGCAAGAC+TGG 0.423482 8:-21145895 None:intergenic
TATCTTTGCACTTCAACAAC+AGG 0.440225 8:+21139857 MsaT042387.1:CDS
CGCAAGACTGGCTTGAACAT+AGG 0.443864 8:-21145883 None:intergenic
TGATGATGAACTCCAAGCTT+TGG 0.447081 8:+21146112 MsaT042387.1:CDS
AAAATGCATGGACATGTTAG+AGG 0.451013 8:-21146021 None:intergenic
AATACGCATGAGTAACTTAG+AGG 0.455089 8:-21139745 None:intergenic
CTGCAAAATGAACCGTTCCT+TGG 0.456736 8:-21139692 None:intergenic
AACTTGGTGAAGAGCTTTGA+GGG 0.457519 8:-21145950 None:intergenic
AGTAACTAGTGAGAATTAGA+TGG 0.459047 8:-21146179 None:intergenic
TTTGCTATGAAGCTCTTGCT+AGG 0.463484 8:+21139802 MsaT042387.1:CDS
TCATTCCTCCTCAGATCACT+TGG 0.466936 8:+21145974 MsaT042387.1:CDS
CAAATTCTCGAGCCAAAGCT+TGG 0.467986 8:-21146124 None:intergenic
AAACTTGGTGAAGAGCTTTG+AGG 0.503962 8:-21145951 None:intergenic
TCATCAACCACTTTCATCAC+TGG 0.504907 8:+21146049 MsaT042387.1:CDS
TTGCTATGAAGCTCTTGCTA+GGG 0.514592 8:+21139803 MsaT042387.1:CDS
TTTGTCTCTAGGTACTTGCC+TGG 0.516400 8:+21146143 MsaT042387.1:CDS
TACTGTGGAGGAAAGATTGG+TGG 0.519503 8:+21139573 MsaT042387.1:CDS
GGAAGTGATCAAAGAGGTGG+TGG 0.521500 8:+21139594 MsaT042387.1:CDS
GATTACTGTGGAGGAAAGAT+TGG 0.525418 8:+21139570 MsaT042387.1:CDS
CATTCCTCCTCAGATCACTT+GGG 0.532364 8:+21145975 MsaT042387.1:CDS
GCATCAAGACGTTTATGAGC+TGG 0.532888 8:-21139768 None:intergenic
TGGCTCGAGAATTTGTCTCT+AGG 0.535132 8:+21146132 MsaT042387.1:CDS
ACTAGTGAGAATTAGATGGC+TGG 0.550122 8:-21146175 None:intergenic
CAAAGAGGTGGTGGGCCTTG+TGG 0.560863 8:+21139603 MsaT042387.1:CDS
GATGGCTGGAATCTTACTCC+AGG 0.577857 8:-21146161 None:intergenic
TCTGAGGAGGAATGAAAACT+TGG 0.592858 8:-21145966 None:intergenic
ATTTGTTCCCAAGTGATCTG+AGG 0.614152 8:-21145982 None:intergenic
TGTTCCCAAGTGATCTGAGG+AGG 0.621503 8:-21145979 None:intergenic
CTCAAGTCCAGTGATGAAAG+TGG 0.626559 8:-21146056 None:intergenic
TTGATGAGGATCAAAATGCA+TGG 0.659360 8:-21146033 None:intergenic
AGTGATGAAAGTGGTTGATG+AGG 0.671964 8:-21146047 None:intergenic
GGTGGAAGTGATCAAAGAGG+TGG 0.685701 8:+21139591 MsaT042387.1:CDS
ATGGAGCTAGCGATATTGGG+AGG 0.696834 8:-21145917 None:intergenic
GAAGTGATCAAAGAGGTGGT+GGG 0.697323 8:+21139595 MsaT042387.1:CDS
GAGCAACACAACCATAAACA+GGG 0.702970 8:-21139833 None:intergenic
ATTGGTGGAAGTGATCAAAG+AGG 0.716315 8:+21139588 MsaT042387.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 21139567 21146196 21139567 ID=MsaG042387
Chr8 mRNA 21139567 21146196 21139567 ID=MsaT042387.1;Parent=MsaG042387
Chr8 exon 21139567 21139878 21139567 ID=MsaT042387.1.exon1;Parent=MsaT042387.1
Chr8 CDS 21139567 21139878 21139567 ID=cds.MsaT042387.1;Parent=MsaT042387.1
Chr8 exon 21145858 21146196 21145858 ID=MsaT042387.1.exon2;Parent=MsaT042387.1
Chr8 CDS 21145858 21146196 21145858 ID=cds.MsaT042387.1;Parent=MsaT042387.1
Gene Sequence

>MsaT042387.1

ATGGATTACTGTGGAGGAAAGATTGGTGGAAGTGATCAAAGAGGTGGTGGGCCTTGTGGTGCTTGCAAGTTTTTGAGAAGAAAGTGTGTAAAAGGTTGCATATTTGCACCATATTTTGATTCAGACCAAGGAACGGTTCATTTTGCAGCAGTTCATAAAGTGTTTGGTGCTAGTAATGCCTCTAAGTTACTCATGCGTATTCCAGCTCATAAACGTCTTGATGCTGTTGTTACTCTTTGCTATGAAGCTCTTGCTAGGGCTAGAGACCCTGTTTATGGTTGTGTTGCTCATATCTTTGCACTTCAACAACAGGTTATGAGCTTGCAGGCAGAGTTAACCTATGTTCAAGCCAGTCTTGCGACAATGCAGCGCCTCCCAATATCGCTAGCTCCATCTCTTCCAAACCCTCAAAGCTCTTCACCAAGTTTTCATTCCTCCTCAGATCACTTGGGAACAAATGCAGACATGCAAAGTACCTCTAACATGTCCATGCATTTTGATCCTCATCAACCACTTTCATCACTGGACTTGAGCAGCTTCTTCAATCAATCAGATCAACAACTTGATGATGATGAACTCCAAGCTTTGGCTCGAGAATTTGTCTCTAGGTACTTGCCTGGAGTAAGATTCCAGCCATCTAATTCTCACTAG
Protein sequence

>MsaT042387.1

MDYCGGKIGGSDQRGGGPCGACKFLRRKCVKGCIFAPYFDSDQGTVHFAAVHKVFGASNASKLLMRIPAHKRLDAVVTLCYEALARARDPVYGCVAHIFALQQQVMSLQAELTYVQASLATMQRLPISLAPSLPNPQSSSPSFHSSSDHLGTNADMQSTSNMSMHFDPHQPLSSLDLSSFFNQSDQQLDDDELQALAREFVSRYLPGVRFQPSNSH*