AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033842

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033842 MtrunA17_Chr6g0479431 94.828 232 10 1 68 299 139 368 9.62e-157 442
MsaG033842 MtrunA17_Chr6g0479431 94.000 50 2 1 1 49 1 50 6.88e-23 97.1
MsaG033842 MtrunA17_Chr3g0109981 48.899 227 95 7 88 298 231 452 1.33e-49 171
MsaG033842 MtrunA17_Chr8g0366281 48.000 200 84 6 115 298 157 352 2.75e-42 149
MsaG033842 MtrunA17_Chr5g0410741 76.744 86 18 1 113 198 201 284 4.45e-37 136
MsaG033842 MtrunA17_Chr1g0154261 41.709 199 87 4 7 196 11 189 8.21e-35 127
MsaG033842 MtrunA17_Chr7g0243081 55.294 85 31 1 132 209 70 154 3.64e-23 97.8
MsaG033842 MtrunA17_Chr1g0162931 65.517 58 20 0 132 189 17 74 9.74e-22 92.4
MsaG033842 MtrunA17_Chr1g0210911 63.793 58 21 0 132 189 21 78 4.72e-21 91.7
MsaG033842 MtrunA17_Chr8g0379121 67.241 58 19 0 132 189 110 167 3.86e-20 89.7
MsaG033842 MtrunA17_Chr2g0320231 68.966 58 18 0 132 189 96 153 4.39e-20 89.4
MsaG033842 MtrunA17_Chr7g0261911 41.045 134 63 5 73 206 216 333 6.14e-19 86.7
MsaG033842 MtrunA17_Chr3g0095611 32.704 159 77 4 134 288 20 152 4.03e-18 81.3
MsaG033842 MtrunA17_Chr7g0274471 56.164 73 30 1 134 206 219 289 5.28e-18 84.0
MsaG033842 MtrunA17_Chr1g0190301 62.500 64 22 1 134 197 176 237 6.48e-18 83.2
MsaG033842 MtrunA17_Chr2g0288601 66.038 53 18 0 132 184 70 122 8.16e-18 78.2
MsaG033842 MtrunA17_Chr5g0409731 67.925 53 17 0 134 186 26 78 1.14e-17 81.6
MsaG033842 MtrunA17_Chr7g0254981 57.576 66 26 1 135 200 52 115 2.30e-17 80.5
MsaG033842 MtrunA17_Chr1g0175091 57.377 61 26 0 135 195 260 320 7.34e-17 80.5
MsaG033842 MtrunA17_Chr2g0283951 61.290 62 20 1 132 189 88 149 7.77e-17 80.1
MsaG033842 MtrunA17_Chr7g0258551 60.000 55 22 0 135 189 214 268 2.10e-16 79.0
MsaG033842 MtrunA17_Chr2g0291021 60.000 65 24 1 135 199 51 113 2.50e-16 78.2
MsaG033842 MtrunA17_Chr2g0290991 58.333 60 25 0 134 193 40 99 3.33e-16 77.4
MsaG033842 MtrunA17_Chr1g0197171 48.148 81 41 1 134 214 45 124 3.81e-16 77.0
MsaG033842 MtrunA17_Chr2g0321461 57.895 57 24 0 134 190 46 102 7.41e-16 77.4
MsaG033842 MtrunA17_Chr8g0356501 56.667 60 26 0 134 193 38 97 1.38e-15 76.3
MsaG033842 MtrunA17_Chr2g0310011 56.667 60 26 0 134 193 36 95 1.48e-15 75.9
MsaG033842 MtrunA17_Chr6g0461641 60.377 53 21 0 134 186 43 95 2.19e-15 75.9
MsaG033842 MtrunA17_Chr5g0417521 53.571 56 26 0 134 189 16 71 4.28e-15 74.7
MsaG033842 MtrunA17_Chr4g0042451 39.785 93 50 2 134 226 18 104 1.19e-14 73.2
MsaG033842 MtrunA17_Chr1g0175081 49.180 61 31 0 135 195 24 84 2.09e-14 68.2
MsaG033842 MtrunA17_Chr1g0175071 50.847 59 29 0 135 193 179 237 6.91e-13 68.2
MsaG033842 MtrunA17_Chr7g0242521 55.172 58 23 1 135 189 15 72 9.94e-13 66.6
MsaG033842 MtrunA17_Chr4g0062921 40.426 94 55 1 103 196 206 298 4.06e-12 66.2
MsaG033842 MtrunA17_Chr4g0045361 41.935 93 47 2 115 207 261 346 4.21e-12 66.2
MsaG033842 MtrunA17_Chr2g0304841 39.024 82 43 2 132 207 212 292 1.51e-11 65.1
MsaG033842 MtrunA17_Chr1g0198601 40.741 81 46 1 123 203 201 279 1.85e-11 63.9
MsaG033842 MtrunA17_Chr5g0402631 45.122 82 43 1 132 213 213 292 4.07e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033842 AT5G16560.1 53.398 206 68 9 113 299 201 397 1.30e-47 164
MsaG033842 AT1G32240.1 45.854 205 74 5 116 299 198 386 3.04e-39 142
MsaG033842 AT1G32240.2 84.337 83 11 2 116 198 198 278 1.17e-38 140
MsaG033842 AT5G42630.1 39.189 296 128 11 4 299 14 257 2.82e-37 134
MsaG033842 AT5G42630.2 46.316 190 64 6 4 193 14 165 3.39e-35 127
MsaG033842 AT4G17695.1 76.623 77 18 0 122 198 153 229 3.59e-35 129
MsaG033842 AT4G04605.1 68.966 58 18 0 132 189 13 70 1.18e-21 91.3
MsaG033842 AT2G38300.1 46.341 123 51 4 132 242 53 172 1.83e-21 93.2
MsaG033842 AT2G40260.1 50.000 100 31 3 132 231 81 161 2.70e-21 93.6
MsaG033842 AT2G02060.2 57.143 84 23 3 106 186 9 82 8.28e-21 89.7
MsaG033842 AT2G02060.1 57.143 84 23 3 106 186 9 82 8.28e-21 89.7
MsaG033842 AT1G14600.1 66.102 59 20 0 133 191 23 81 4.69e-20 87.8
MsaG033842 AT4G04580.1 59.322 59 24 0 134 192 15 73 2.03e-18 81.3
MsaG033842 AT5G45580.2 53.947 76 28 1 111 186 8 76 2.15e-18 83.6
MsaG033842 AT2G42660.1 66.071 56 19 0 134 189 51 106 2.26e-18 83.2
MsaG033842 AT5G45580.1 67.925 53 17 0 134 186 8 60 3.09e-18 82.8
MsaG033842 AT4G28610.1 52.055 73 35 0 135 207 227 299 1.56e-17 82.8
MsaG033842 AT4G04555.1 55.738 61 27 0 132 192 13 73 1.70e-17 77.0
MsaG033842 AT3G04450.4 54.930 71 30 1 135 205 200 268 3.26e-17 81.6
MsaG033842 AT3G04450.2 54.930 71 30 1 135 205 200 268 3.26e-17 81.6
MsaG033842 AT3G04450.1 54.930 71 30 1 135 205 240 308 3.61e-17 81.6
MsaG033842 AT5G18240.2 43.333 90 49 1 134 221 46 135 5.23e-17 80.9
MsaG033842 AT5G18240.3 43.333 90 49 1 134 221 46 135 5.23e-17 80.9
MsaG033842 AT5G18240.1 43.333 90 49 1 134 221 46 135 5.77e-17 80.9
MsaG033842 AT5G18240.4 43.333 90 49 1 134 221 46 135 5.77e-17 80.9
MsaG033842 AT5G18240.5 43.333 90 49 1 134 221 46 135 6.22e-17 80.9
MsaG033842 AT2G01060.1 59.091 66 25 1 135 200 17 80 9.31e-17 79.3
MsaG033842 AT4G13640.2 44.318 88 47 1 134 221 38 123 1.20e-16 79.0
MsaG033842 AT4G13640.1 44.318 88 47 1 134 221 38 123 1.33e-16 79.0
MsaG033842 AT3G04450.3 58.462 65 25 1 135 199 240 302 1.90e-16 78.6
MsaG033842 AT3G12730.1 58.333 60 25 0 134 193 24 83 2.47e-16 77.0
MsaG033842 AT3G24120.2 46.053 76 41 0 134 209 42 117 3.50e-16 77.8
MsaG033842 AT3G24120.1 46.053 76 41 0 134 209 42 117 3.66e-16 77.4
MsaG033842 AT3G04030.1 44.737 76 42 0 134 209 46 121 5.05e-16 78.2
MsaG033842 AT3G04030.3 44.737 76 42 0 134 209 46 121 5.56e-16 78.2
MsaG033842 AT5G29000.1 63.636 55 20 0 135 189 190 244 7.72e-16 77.4
MsaG033842 AT5G29000.3 63.636 55 20 0 135 189 190 244 7.72e-16 77.4
MsaG033842 AT5G29000.4 63.636 55 20 0 135 189 233 287 8.39e-16 76.6
MsaG033842 AT5G29000.2 63.636 55 20 0 135 189 233 287 1.05e-15 77.4
MsaG033842 AT1G79430.2 56.667 60 26 0 134 193 35 94 1.72e-15 76.3
MsaG033842 AT2G20400.2 50.667 75 37 0 135 209 233 307 2.40e-15 76.3
MsaG033842 AT2G20400.1 57.812 64 27 0 135 198 233 296 6.30e-15 75.1
MsaG033842 AT5G06800.3 56.364 55 24 0 135 189 194 248 1.42e-14 72.8
MsaG033842 AT3G13040.3 61.818 55 21 0 135 189 243 297 2.48e-14 73.6
MsaG033842 AT3G13040.1 61.818 55 21 0 135 189 243 297 2.48e-14 73.6
MsaG033842 AT3G13040.2 61.818 55 21 0 135 189 243 297 2.48e-14 73.6
MsaG033842 AT5G06800.1 56.364 55 24 0 135 189 194 248 4.65e-14 72.4
MsaG033842 AT5G06800.2 56.364 55 24 0 135 189 194 248 4.67e-14 72.4
MsaG033842 AT2G06020.1 61.538 52 20 0 135 186 88 139 6.19e-14 71.2
MsaG033842 AT1G69580.1 45.205 73 37 1 134 203 35 107 9.23e-14 71.2
MsaG033842 AT1G69580.2 45.205 73 37 1 134 203 35 107 1.04e-13 70.9
MsaG033842 AT3G04030.2 43.421 76 42 1 134 209 46 120 1.56e-13 70.9
MsaG033842 AT1G32240.3 34.615 156 61 4 168 299 1 139 5.07e-12 62.8
MsaG033842 AT2G03500.1 44.737 76 38 1 125 200 229 300 6.17e-12 66.2
MsaG033842 AT4G37180.1 36.000 100 52 1 122 209 199 298 7.95e-11 62.4
MsaG033842 AT4G37180.2 36.000 100 52 1 122 209 206 305 8.08e-11 62.4

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTAGCTCCAAAACTGATTT+AGG 0.195719 6:+100470163 None:intergenic
GCTACACTTCCAACATTCTA+TGG 0.201212 6:-100468130 MsaT033842.1:CDS
CTCTTATTACTTTGTTGCCT+TGG 0.255750 6:+100470633 None:intergenic
CAGTTTGGAAATTCTGAGTT+TGG 0.267628 6:-100470687 MsaT033842.1:CDS
AGCTACTCCTAAATCAGTTT+TGG 0.286064 6:-100470170 MsaT033842.1:CDS
TTTGATCATGAGGTTGTGTT+AGG 0.298913 6:+100468189 None:intergenic
AAGGGAATTTCAAGGTTTAA+TGG 0.305858 6:-100470807 MsaT033842.1:CDS
CCTAAGGTGAACTCCAAGTT+TGG 0.345023 6:+100458904 None:intergenic
GAACTAGTCCATCGCATTCT+CGG 0.354623 6:+100470597 None:intergenic
GCATCTCTAGATCATGATAT+TGG 0.355771 6:-100468152 MsaT033842.1:CDS
GGAAATTCTGAGTTTGGAAA+TGG 0.358999 6:-100470681 MsaT033842.1:CDS
GACAAGCCAGCAGCTTCTTC+AGG 0.364958 6:-100469206 MsaT033842.1:intron
GTGAACTCCAAGTTTGGATT+CGG 0.373038 6:+100458910 None:intergenic
ACATGGACACAAGGTAGTTC+TGG 0.378399 6:-100459746 MsaT033842.1:CDS
CCAAACTTGGAGTTCACCTT+AGG 0.383764 6:-100458904 MsaT033842.1:CDS
TCATGTCAAGAGTCATTTAC+AGG 0.385177 6:-100470116 MsaT033842.1:intron
CAGCAGAAGGTGAATCAGTT+TGG 0.390273 6:-100470702 MsaT033842.1:CDS
GAAATTTGAAGTGAAAGATC+AGG 0.390677 6:+100471224 None:intergenic
GTTCACGCCGTTGAGCTTCT+CGG 0.392269 6:-100470558 MsaT033842.1:CDS
AGAGAAGAGATATACTTTCA+TGG 0.417461 6:+100470532 None:intergenic
TATGGGCTAATTCTTCTTCA+AGG 0.425004 6:-100468112 MsaT033842.1:intron
AATGATGCTATTACTCATGA+AGG 0.440295 6:-100471119 MsaT033842.1:intron
TTCCAATGTGGTGAGTTGAT+AGG 0.454476 6:+100459690 None:intergenic
TGAACTCCAAGTTTGGATTC+GGG 0.463473 6:+100458911 None:intergenic
CAAATTGATGAAGAACTGTT+TGG 0.476407 6:+100471197 None:intergenic
CAAGGCAACAAAGTAATAAG+AGG 0.479420 6:-100470632 MsaT033842.1:CDS
TTGATCATGAGGTTGTGTTA+GGG 0.490043 6:+100468190 None:intergenic
CAAACTTGGAGTTCACCTTA+GGG 0.497170 6:-100458903 MsaT033842.1:CDS
AGACTGCCCGAATCCAAACT+TGG 0.518461 6:-100458917 MsaT033842.1:CDS
CTACACTTCCAACATTCTAT+GGG 0.540264 6:-100468129 MsaT033842.1:CDS
CCACATTGGAAAGCTTCCTC+AGG 0.553225 6:-100459678 MsaT033842.1:intron
AGAATTAGCCCATAGAATGT+TGG 0.553625 6:+100468121 None:intergenic
TATACAATCAAGAAGTTCCA+AGG 0.562595 6:-100458950 MsaT033842.1:CDS
AAAGTAATAAGAGGAACATG+AGG 0.570980 6:-100470623 MsaT033842.1:CDS
ATCCTATCAACTCACCACAT+TGG 0.574962 6:-100459692 MsaT033842.1:CDS
AGGGTGTTAAGGGAATTTCA+AGG 0.576474 6:-100470815 MsaT033842.1:CDS
ATTATACCTGAAGAAGCTGC+TGG 0.580120 6:+100469200 None:intergenic
TGAGGGCTCCGAGAATGCGA+TGG 0.608831 6:-100470605 MsaT033842.1:CDS
GCATCATCAACAACAGCAGA+AGG 0.612463 6:-100470715 MsaT033842.1:CDS
AGATCAGGAATCTGATTCTG+TGG 0.619147 6:+100471239 None:intergenic
GGTCAAGAATGATGATGCCA+AGG 0.620405 6:-100470650 MsaT033842.1:CDS
TGACTGGCAGTAATGGAACA+TGG 0.648272 6:-100459763 MsaT033842.1:intron
CCTGAGGAAGCTTTCCAATG+TGG 0.649852 6:+100459678 None:intergenic
ATGGCCGCCGAGAAGCTCAA+CGG 0.658735 6:+100470551 None:intergenic
AAGTAATAAGAGGAACATGA+GGG 0.670806 6:-100470622 MsaT033842.1:CDS
AGTAATGGAACATGGACACA+AGG 0.680964 6:-100459755 MsaT033842.1:CDS
CACGCCGTTGAGCTTCTCGG+CGG 0.701910 6:-100470555 MsaT033842.1:CDS
AGTTTGGAAATGGATTTGTG+AGG 0.745468 6:-100470671 MsaT033842.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 100458897 100471264 100458897 ID=MsaG033842
Chr6 mRNA 100458897 100471264 100458897 ID=MsaT033842.1;Parent=MsaG033842
Chr6 exon 100458897 100458983 100458897 ID=MsaT033842.1.exon7;Parent=MsaT033842.1
Chr6 CDS 100458897 100458983 100458897 ID=cds.MsaT033842.1;Parent=MsaT033842.1
Chr6 exon 100459679 100459775 100459679 ID=MsaT033842.1.exon6;Parent=MsaT033842.1
Chr6 CDS 100459679 100459775 100459679 ID=cds.MsaT033842.1;Parent=MsaT033842.1
Chr6 exon 100468113 100468233 100468113 ID=MsaT033842.1.exon5;Parent=MsaT033842.1
Chr6 CDS 100468113 100468233 100468113 ID=cds.MsaT033842.1;Parent=MsaT033842.1
Chr6 exon 100469207 100469252 100469207 ID=MsaT033842.1.exon4;Parent=MsaT033842.1
Chr6 CDS 100469207 100469252 100469207 ID=cds.MsaT033842.1;Parent=MsaT033842.1
Chr6 exon 100470117 100470193 100470117 ID=MsaT033842.1.exon3;Parent=MsaT033842.1
Chr6 CDS 100470117 100470193 100470117 ID=cds.MsaT033842.1;Parent=MsaT033842.1
Chr6 exon 100470547 100470873 100470547 ID=MsaT033842.1.exon2;Parent=MsaT033842.1
Chr6 CDS 100470547 100470873 100470547 ID=cds.MsaT033842.1;Parent=MsaT033842.1
Chr6 exon 100471120 100471264 100471120 ID=MsaT033842.1.exon1;Parent=MsaT033842.1
Chr6 CDS 100471120 100471264 100471120 ID=cds.MsaT033842.1;Parent=MsaT033842.1
Gene Sequence

>MsaT033842.1

ATGCCACAGAATCAGATTCCTGATCTTTCACTTCAAATTTCTCTACCAAACAGTTCTTCATCAATTTGCACAACAAATGAAGTTGATGATTTAGATTCATCTTTTGATATATGGAAAAATATTAATGATGCTATTACTCATGAAGCTAGTTCTTCAACTTTTTGTGGTCATAATGGTTTTGAGGGTGTTAAGGGAATTTCAAGGTTTAATGGAATAACTATAGAGAGTTTAAGACCTCAAAAGTTTCAATATATGAATCATCATCAGCATCATCTTCTACAGCATCATCAACAACAGCAGAAGGTGAATCAGTTTGGAAATTCTGAGTTTGGAAATGGATTTGTGAGGTCAAGAATGATGATGCCAAGGCAACAAAGTAATAAGAGGAACATGAGGGCTCCGAGAATGCGATGGACTAGTTCGCTTCATAATCGATTTGTTCACGCCGTTGAGCTTCTCGGCGGCCATGAAAGAGCTACTCCTAAATCAGTTTTGGAGCTAATGGATGTGAAAGATCTAACACTAGCTCATGTCAAGAGTCATTTACAGATGTATAGAACTGTTAAAAACACTGACAAGCCAGCAGCTTCTTCAGATGGAGATGAGAATTTCATGTCCCTAACACAACCTCATGATCAAAATAAGAACTATAATGCATCTCTAGATCATGATATTGGCTACACTTCCAACATTCTATGGGCTAATTCTTCTTCAAGTAATGGAACATGGACACAAGGTAGTTCTGGAAATCATTTTGAGGAACTTAGCACACAAGAAATCCTATCAACTCACCACATTGGAAAGCTTCCTCAGGGAAGCAGTTGTATACAATCAAGAAGTTCCAAGGATCAAAACATAGACTGCCCGAATCCAAACTTGGAGTTCACCTTAGGGAGATAA
Protein sequence

>MsaT033842.1

MPQNQIPDLSLQISLPNSSSSICTTNEVDDLDSSFDIWKNINDAITHEASSSTFCGHNGFEGVKGISRFNGITIESLRPQKFQYMNHHQHHLLQHHQQQQKVNQFGNSEFGNGFVRSRMMMPRQQSNKRNMRAPRMRWTSSLHNRFVHAVELLGGHERATPKSVLELMDVKDLTLAHVKSHLQMYRTVKNTDKPAASSDGDENFMSLTQPHDQNKNYNASLDHDIGYTSNILWANSSSSNGTWTQGSSGNHFEELSTQEILSTHHIGKLPQGSSCIQSRSSKDQNIDCPNPNLEFTLGR*