AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026257

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026257 MtrunA17_Chr5g0411951 92.733 344 14 4 1 341 1 336 0.0 570
MsaG026257 MtrunA17_Chr8g0367161 46.866 367 128 13 11 341 3 338 7.61e-80 247
MsaG026257 MtrunA17_Chr2g0328021 60.000 100 40 0 38 137 57 156 2.45e-37 135
MsaG026257 MtrunA17_Chr8g0374251 69.880 83 25 0 40 122 65 147 2.47e-37 137
MsaG026257 MtrunA17_Chr4g0031411 64.894 94 24 2 38 122 70 163 5.21e-36 133
MsaG026257 MtrunA17_Chr8g0346551 44.937 158 70 5 39 183 20 173 1.70e-33 124
MsaG026257 MtrunA17_Chr4g0047001 68.000 75 24 0 44 118 56 130 1.69e-32 124
MsaG026257 MtrunA17_Chr7g0237921 57.895 114 34 3 40 144 73 181 5.64e-32 122
MsaG026257 MtrunA17_Chr2g0326001 83.051 59 10 0 39 97 36 94 8.98e-32 120
MsaG026257 MtrunA17_Chr4g0010151 79.661 59 12 0 39 97 78 136 1.17e-31 122
MsaG026257 MtrunA17_Chr7g0223311 80.000 60 12 0 44 103 78 137 7.85e-31 120
MsaG026257 MtrunA17_Chr4g0030051 81.667 60 10 1 37 95 34 93 9.68e-31 117
MsaG026257 MtrunA17_Chr3g0126201 64.706 85 26 2 27 107 34 118 4.47e-30 117
MsaG026257 MtrunA17_Chr8g0341671 70.588 68 19 1 38 105 15 81 1.08e-29 113
MsaG026257 MtrunA17_Chr2g0282441 67.105 76 22 1 19 94 4 76 1.09e-29 116
MsaG026257 MtrunA17_Chr4g0061761 88.235 51 6 0 43 93 40 90 1.84e-29 115
MsaG026257 MtrunA17_Chr3g0127201 77.586 58 13 0 40 97 24 81 1.87e-29 114
MsaG026257 MtrunA17_Chr3g0117601 71.212 66 18 1 29 93 46 111 5.56e-29 114
MsaG026257 MtrunA17_Chr8g0374111 71.667 60 17 0 38 97 24 83 1.21e-28 110
MsaG026257 MtrunA17_Chr1g0177251 84.906 53 8 0 45 97 14 66 1.28e-28 112
MsaG026257 MtrunA17_Chr1g0188851 71.875 64 15 1 37 97 34 97 5.94e-28 110
MsaG026257 MtrunA17_Chr2g0282511 83.673 49 8 0 43 91 45 93 8.59e-27 107
MsaG026257 MtrunA17_Chr2g0308011 83.673 49 8 0 43 91 37 85 8.79e-27 105
MsaG026257 MtrunA17_Chr6g0460721 46.939 98 44 1 3 100 57 146 2.40e-26 107
MsaG026257 MtrunA17_Chr6g0460731 46.939 98 44 1 3 100 64 153 5.35e-26 106
MsaG026257 MtrunA17_Chr4g0047761 71.186 59 16 1 41 99 70 127 8.79e-26 105
MsaG026257 MtrunA17_Chr4g0042481 58.108 74 31 0 28 101 107 180 1.08e-25 107
MsaG026257 MtrunA17_Chr2g0282051 71.930 57 15 1 43 99 46 101 1.48e-25 103
MsaG026257 MtrunA17_Chr6g0453321 67.742 62 20 0 35 96 128 189 1.70e-25 106
MsaG026257 MtrunA17_Chr7g0217581 60.870 69 27 0 28 96 217 285 4.65e-25 105
MsaG026257 MtrunA17_Chr7g0254161 48.485 99 50 1 2 100 61 158 5.19e-25 104
MsaG026257 MtrunA17_Chr3g0092111 48.454 97 43 1 12 101 98 194 5.29e-25 105
MsaG026257 MtrunA17_Chr8g0355261 48.000 100 41 2 37 125 112 211 1.22e-24 103
MsaG026257 MtrunA17_Chr2g0283811 63.492 63 23 0 34 96 38 100 2.13e-24 97.4
MsaG026257 MtrunA17_Chr5g0417571 52.174 92 36 2 5 96 108 191 8.52e-24 99.8
MsaG026257 MtrunA17_Chr5g0417551 51.807 83 40 0 26 108 110 192 5.61e-22 95.5
MsaG026257 MtrunA17_Chr5g0417561 56.338 71 31 0 26 96 102 172 6.97e-22 95.1
MsaG026257 MtrunA17_Chr5g0417601 68.519 54 17 0 43 96 140 193 1.73e-21 94.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026257 AT5G65590.1 42.945 326 142 16 30 341 21 316 2.05e-65 209
MsaG026257 AT5G60200.1 67.073 82 27 0 25 106 37 118 2.82e-37 134
MsaG026257 AT2G37590.1 80.328 61 12 0 39 99 85 145 8.95e-34 127
MsaG026257 AT1G51700.1 75.714 70 16 1 38 106 28 97 1.10e-33 123
MsaG026257 AT2G28810.2 67.606 71 23 0 24 94 58 128 5.38e-33 125
MsaG026257 AT3G55370.1 75.000 68 17 0 39 106 72 139 8.66e-33 124
MsaG026257 AT2G28810.1 67.606 71 23 0 24 94 75 145 9.81e-33 124
MsaG026257 AT3G45610.1 68.493 73 23 0 32 104 29 101 1.21e-32 122
MsaG026257 AT3G55370.2 75.000 68 17 0 39 106 72 139 1.25e-32 124
MsaG026257 AT3G55370.3 75.000 68 17 0 39 106 117 184 1.47e-32 125
MsaG026257 AT2G28510.1 45.087 173 84 5 45 216 50 212 1.74e-32 122
MsaG026257 AT5G02460.1 81.356 59 11 0 39 97 91 149 1.12e-31 123
MsaG026257 AT1G07640.1 66.216 74 25 0 24 97 2 75 2.57e-31 119
MsaG026257 AT1G07640.2 85.455 55 8 0 43 97 77 131 3.50e-31 120
MsaG026257 AT1G07640.3 85.455 55 8 0 43 97 85 139 4.32e-31 120
MsaG026257 AT3G21270.1 88.679 53 6 0 43 95 29 81 5.26e-31 116
MsaG026257 AT3G52440.1 59.000 100 30 2 40 139 22 110 6.05e-31 117
MsaG026257 AT5G60850.1 78.333 60 13 0 41 100 49 108 9.68e-31 119
MsaG026257 AT3G52440.2 59.000 100 30 2 40 139 41 129 1.16e-30 117
MsaG026257 AT3G61850.2 51.724 116 45 4 39 153 58 163 7.64e-30 115
MsaG026257 AT3G61850.3 51.724 116 45 4 39 153 58 163 7.64e-30 115
MsaG026257 AT3G61850.1 51.724 116 45 4 39 153 70 175 7.79e-30 116
MsaG026257 AT4G38000.1 57.426 101 30 2 34 121 20 120 9.38e-30 114
MsaG026257 AT3G61850.5 51.724 116 45 4 39 153 58 163 1.25e-29 115
MsaG026257 AT3G61850.4 51.724 116 45 4 39 153 70 175 1.51e-29 115
MsaG026257 AT1G28310.1 78.947 57 12 0 43 99 27 83 3.41e-29 114
MsaG026257 AT4G21050.1 67.647 68 21 1 37 104 19 85 5.19e-29 111
MsaG026257 AT1G28310.2 78.947 57 12 0 43 99 51 107 5.50e-29 114
MsaG026257 AT1G21340.1 70.968 62 18 0 45 106 40 101 1.94e-28 111
MsaG026257 AT4G00940.1 68.182 66 21 0 33 98 58 123 6.93e-28 110
MsaG026257 AT4G00940.3 68.182 66 21 0 33 98 58 123 6.93e-28 110
MsaG026257 AT4G00940.2 68.182 66 21 0 33 98 58 123 6.93e-28 110
MsaG026257 AT2G34140.1 53.261 92 42 1 6 96 20 111 1.02e-27 107
MsaG026257 AT4G24060.1 75.862 58 14 0 40 97 50 107 1.19e-27 111
MsaG026257 AT5G62940.1 75.862 58 13 1 37 93 66 123 1.61e-27 111
MsaG026257 AT3G50410.1 70.690 58 17 0 40 97 27 84 7.36e-27 107
MsaG026257 AT1G26790.1 43.651 126 70 1 1 126 69 193 2.23e-26 108
MsaG026257 AT5G66940.1 61.538 65 25 0 40 104 29 93 5.68e-26 103
MsaG026257 AT2G46590.1 76.923 52 12 0 39 90 64 115 8.22e-26 106
MsaG026257 AT2G46590.2 76.923 52 12 0 39 90 76 127 9.89e-26 106
MsaG026257 AT1G29160.1 62.319 69 26 0 28 96 47 115 1.19e-25 101
MsaG026257 AT5G62430.1 61.429 70 27 0 27 96 38 107 3.65e-25 103
MsaG026257 AT1G64620.1 75.472 53 13 0 40 92 46 98 6.39e-25 103
MsaG026257 AT3G47500.1 45.161 124 53 3 2 125 80 188 6.41e-25 105
MsaG026257 AT5G39660.3 44.444 108 56 1 6 113 105 208 1.94e-24 103
MsaG026257 AT5G39660.1 44.444 108 56 1 6 113 105 208 1.94e-24 103
MsaG026257 AT5G39660.2 44.444 108 56 1 6 113 105 208 1.94e-24 103
MsaG026257 AT1G69570.1 59.420 69 28 0 33 101 122 190 3.57e-24 102
MsaG026257 AT1G47655.1 57.971 69 27 1 25 91 9 77 8.65e-24 97.4
MsaG026257 AT4G21040.1 76.923 52 12 0 45 96 27 78 3.32e-23 96.7
MsaG026257 AT4G21080.1 65.079 63 21 1 45 106 27 89 1.35e-22 95.5
MsaG026257 AT4G21030.1 42.683 82 42 2 27 106 8 86 2.05e-14 71.2

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCAAGATTCTGAAACAAAA+TGG 0.209045 5:-19217423 None:intergenic
TTCTCTTTCTTCACCTTCCA+TGG 0.316516 5:+19217013 MsaT026257.1:CDS
TTATAATTACCTGATGAAAA+AGG 0.326439 5:-19217200 None:intergenic
GCAAAACATGTAGAAGATAT+TGG 0.332074 5:+19216838 MsaT026257.1:CDS
TTTCTCCAAAAGATGAAAAC+TGG 0.363395 5:-19217118 None:intergenic
TCTTCTTCTTCAGAGCTTGT+TGG 0.374369 5:+19216972 MsaT026257.1:CDS
AACATTAACCAACAAGGTTC+TGG 0.375115 5:+19216675 MsaT026257.1:CDS
TGGAATGGAGGTGGTGTTCA+TGG 0.438875 5:+19217593 MsaT026257.1:CDS
TAGGAGTAGTAGAAATTTGA+GGG 0.447158 5:-19217088 None:intergenic
TGTAGAAGATATTGGACAAA+AGG 0.447881 5:+19216846 MsaT026257.1:CDS
TCTTACCACCAGAACCTTGT+TGG 0.450835 5:-19216683 None:intergenic
ATGGAGGTGGTGTTCATGGT+TGG 0.452930 5:+19217597 MsaT026257.1:CDS
TGATTATGAAGTTGAAGTCT+TGG 0.460479 5:-19217065 None:intergenic
TCAAGATTCTGAAACAAAAT+GGG 0.479207 5:-19217422 None:intergenic
TCTTCTTCAGAGCTTGTTGG+TGG 0.480751 5:+19216975 MsaT026257.1:CDS
GTAGCTTCCAGTGCAAGTCT+TGG 0.484387 5:-19217310 None:intergenic
ATAGGAGTAGTAGAAATTTG+AGG 0.486036 5:-19217089 None:intergenic
CGCAACGTTCCAATCGGTGG+TGG 0.493729 5:+19216879 MsaT026257.1:CDS
CCTACTGCAAGTGGTGGAGC+TGG 0.519120 5:+19217551 MsaT026257.1:CDS
TTTCTACATCCACCACCGAT+TGG 0.522050 5:-19216888 None:intergenic
GGTGGAGCTGGACATGATAG+TGG 0.524755 5:+19217563 MsaT026257.1:CDS
GTGTTGGGTGAGTCACATCT+TGG 0.525160 5:-19216765 None:intergenic
AATTATAATGGTGCAATACA+AGG 0.531532 5:+19217215 MsaT026257.1:CDS
GCTTTACGCAACGTTCCAAT+CGG 0.531943 5:+19216873 MsaT026257.1:CDS
CTATGAACCAAGACTTGCAC+TGG 0.534331 5:+19217303 MsaT026257.1:CDS
GATTCTGAAACAAAATGGGT+TGG 0.535817 5:-19217418 None:intergenic
GACATGATAGTGGAAGCAAC+TGG 0.536262 5:+19217573 MsaT026257.1:CDS
GATGAAAACTGGTTATACAT+AGG 0.549549 5:-19217107 None:intergenic
TGAAACAAAATGGGTTGGAG+TGG 0.578171 5:-19217413 None:intergenic
AGAAGATATTGGACAAAAGG+TGG 0.584366 5:+19216849 MsaT026257.1:CDS
GATAGTGGAAGCAACTGGAA+TGG 0.593132 5:+19217578 MsaT026257.1:CDS
ACTACCAAGATGAAAATCCA+TGG 0.598151 5:-19217030 None:intergenic
CCAAGATGAAAATCCATGGA+AGG 0.609817 5:-19217026 None:intergenic
TTACGCAACGTTCCAATCGG+TGG 0.621443 5:+19216876 MsaT026257.1:CDS
AAGGTGAAGAAAGAGAATGA+AGG 0.625711 5:-19217007 None:intergenic
CCAGCTCCACCACTTGCAGT+AGG 0.633722 5:-19217551 None:intergenic
ATTAACCAACAAGGTTCTGG+TGG 0.637524 5:+19216678 MsaT026257.1:CDS
GAGAAGATGCAGCAACTGAG+TGG 0.651408 5:+19217492 MsaT026257.1:CDS
GGAAGCAACTGGAATGGAGG+TGG 0.653313 5:+19217584 MsaT026257.1:CDS
GCTGCTACACCTACTGCAAG+TGG 0.675331 5:+19217542 MsaT026257.1:CDS
AGTGGAAGCAACTGGAATGG+AGG 0.675339 5:+19217581 MsaT026257.1:CDS
GCTACACCTACTGCAAGTGG+TGG 0.683188 5:+19217545 MsaT026257.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 19216630 19217655 19216630 ID=MsaG026257
Chr5 mRNA 19216630 19217655 19216630 ID=MsaT026257.1;Parent=MsaG026257
Chr5 exon 19216630 19217655 19216630 ID=MsaT026257.1.exon1;Parent=MsaT026257.1
Chr5 CDS 19216630 19217655 19216630 ID=cds.MsaT026257.1;Parent=MsaT026257.1
Gene Sequence

>MsaT026257.1

ATGTCACAAAATGAAACACAAACCTCAAAATCTCCAAAAGAAAAAAACATTAACCAACAAGGTTCTGGTGGTAAGAAAACATCTTCATCATCTTCTACCTCAACAACAAAACCACCAGAACAAAACATGAAGTGTCCAAGATGTGACTCACCCAACACAAAATTCTGCTACTACAACAACTATAGCTTAACACAACCAAGACATTTCTGCAAAACATGTAGAAGATATTGGACAAAAGGTGGAGCTTTACGCAACGTTCCAATCGGTGGTGGATGTAGAAAAAACAAGAAAATGAAATCATCATCATCATCAAGACTCTCTTGTGATTCAAAAGACTCAGCTTCTTCTTCTTCAGAGCTTGTTGGTGGCTTGAAATTCCTTCATTCTCTTTCTTCACCTTCCATGGATTTTCATCTTGGTAGTGGTTTATCTTTTCCAAGACTTCAACTTCATAATCACCCTCAAATTTCTACTACTCCTATGTATAACCAGTTTTCATCTTTTGGAGAAACTTCTTCTGCTATGAATAACTATCATGCTTCTTCAAATTCTGTTGCTGCTATGAACTATCCTTTTTCATCAGGTAATTATAATGGTGCAATACAAGGTATGAGTTCAATGAATATTAATCATAGCAATAATAATATTGCTTCTTCTATTGAATCATTGAGTTCTATGAACCAAGACTTGCACTGGAAGCTACAGCAACAAAGATTATCTATGCTTTTTGGTGGTGGAGAAAATCAGAAAGATAATAACAATCTTCAGAATCAGACAGAGAAGCCACTCCAACCCATTTTGTTTCAGAATCTTGAGGTTACAAAGAATGATGATAGAGCTTTTTTTGTTGGAAATTCAAGAAGAGAAGATGCAGCAACTGAGTGGTTTTTTGGGAATTCTTATGGTTCAGCTGCTGCTACACCTACTGCAAGTGGTGGAGCTGGACATGATAGTGGAAGCAACTGGAATGGAGGTGGTGTTCATGGTTGGAGTGATGTGCAACAGCAATATAGTGCTTTGCCCTAG
Protein sequence

>MsaT026257.1

MSQNETQTSKSPKEKNINQQGSGGKKTSSSSSTSTTKPPEQNMKCPRCDSPNTKFCYYNNYSLTQPRHFCKTCRRYWTKGGALRNVPIGGGCRKNKKMKSSSSSRLSCDSKDSASSSSELVGGLKFLHSLSSPSMDFHLGSGLSFPRLQLHNHPQISTTPMYNQFSSFGETSSAMNNYHASSNSVAAMNYPFSSGNYNGAIQGMSSMNINHSNNNIASSIESLSSMNQDLHWKLQQQRLSMLFGGGENQKDNNNLQNQTEKPLQPILFQNLEVTKNDDRAFFVGNSRREDAATEWFFGNSYGSAAATPTASGGAGHDSGSNWNGGGVHGWSDVQQQYSALP*