AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014239


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014239 MtrunA17_Chr3g0103181 73.759 282 70 1 1 282 1 278 4.18e-149 418
MsaG014239 MtrunA17_Chr3g0103171 70.385 260 75 1 25 282 5 264 1.66e-129 368
MsaG014239 MtrunA17_Chr3g0103191 73.413 252 64 3 1 250 1 251 1.95e-129 367
MsaG014239 MtrunA17_Chr3g0103201 72.603 219 59 1 65 282 1 219 3.68e-111 320
MsaG014239 MtrunA17_Chr3g0103151 90.506 158 15 0 1 158 1 158 1.06e-103 299
MsaG014239 MtrunA17_Chr3g0103161 94.488 127 7 0 161 287 1 127 4.73e-85 250
MsaG014239 MtrunA17_Chr1g0163071 35.395 291 147 9 26 282 2 285 5.73e-51 170
MsaG014239 MtrunA17_Chr8g0390841 34.076 314 157 8 4 282 31 329 1.47e-48 169
MsaG014239 MtrunA17_Chr8g0390841 48.438 64 32 1 219 282 454 516 9.63e-13 68.2
MsaG014239 MtrunA17_Chr1g0208771 33.223 301 148 10 21 286 10 292 2.96e-46 161
MsaG014239 MtrunA17_Chr1g0208771 27.178 287 172 11 12 287 201 461 1.47e-15 76.3
MsaG014239 MtrunA17_Chr7g0233561 31.987 297 178 8 9 282 15 310 4.43e-41 144
MsaG014239 MtrunA17_Chr3g0131891 32.056 287 181 7 9 282 16 301 2.47e-38 137
MsaG014239 MtrunA17_Chr1g0163251 30.314 287 173 7 12 285 9 281 2.90e-33 125
MsaG014239 MtrunA17_Chr4g0067431 30.619 307 170 11 10 282 13 310 1.84e-32 122
MsaG014239 MtrunA17_Chr7g0233521 32.197 264 168 5 26 282 2 261 3.01e-32 120
MsaG014239 MtrunA17_Chr1g0163131 29.836 305 179 10 2 280 8 303 4.45e-32 120
MsaG014239 MtrunA17_Chr7g0233541 30.986 284 162 10 26 282 2 278 8.57e-30 114
MsaG014239 MtrunA17_Chr1g0163181 27.875 287 185 7 14 283 11 292 2.81e-28 112
MsaG014239 MtrunA17_Chr7g0233531 28.832 274 164 8 26 282 2 261 7.90e-28 108
MsaG014239 MtrunA17_Chr1g0163261 26.460 291 188 7 9 285 6 284 7.15e-27 106
MsaG014239 MtrunA17_Chr7g0233571 49.020 102 50 1 9 108 7 108 1.44e-26 103
MsaG014239 MtrunA17_Chr5g0419201 34.591 159 84 5 12 158 16 166 5.73e-26 101
MsaG014239 MtrunA17_Chr5g0429931 26.217 267 158 5 25 285 10 243 2.67e-25 101
MsaG014239 MtrunA17_Chr3g0077411 27.119 295 172 7 1 282 251 515 3.35e-25 104
MsaG014239 MtrunA17_Chr3g0077411 25.993 277 152 8 11 285 24 249 2.87e-20 90.5
MsaG014239 MtrunA17_Chr1g0163201 27.915 283 168 9 25 285 18 286 4.63e-25 103
MsaG014239 MtrunA17_Chr3g0077451 26.766 269 147 6 24 285 10 235 2.19e-23 95.9
MsaG014239 MtrunA17_Chr4g0033961 31.522 184 107 4 12 176 6 189 3.89e-23 98.2
MsaG014239 MtrunA17_Chr1g0163221 27.458 295 178 10 10 282 9 289 4.84e-23 97.1
MsaG014239 MtrunA17_Chr1g0163231 26.263 297 177 11 9 285 6 280 1.27e-22 95.1
MsaG014239 MtrunA17_Chr1g0171611 25.517 290 176 9 9 285 6 268 2.38e-21 91.3
MsaG014239 MtrunA17_Chr1g0163061 43.269 104 56 2 10 110 13 116 5.05e-21 90.1
MsaG014239 MtrunA17_Chr6g0467351 29.717 212 131 7 10 204 13 223 5.49e-21 89.0
MsaG014239 MtrunA17_Chr1g0162441 36.029 136 77 2 12 137 7 142 6.84e-21 91.7
MsaG014239 MtrunA17_Chr3g0077461 29.091 275 138 7 11 277 236 461 1.19e-20 91.3
MsaG014239 MtrunA17_Chr3g0077461 43.820 89 48 1 20 108 19 105 9.36e-18 82.8
MsaG014239 MtrunA17_Chr3g0077361 26.335 281 133 9 11 277 39 259 1.98e-20 90.9
MsaG014239 MtrunA17_Chr1g0154161 23.448 290 199 8 10 285 28 308 2.88e-19 86.3
MsaG014239 MtrunA17_Chr1g0163191 35.043 117 70 3 12 126 9 121 1.88e-18 80.5
MsaG014239 MtrunA17_Chr1g0154131 24.759 311 183 9 10 287 182 474 8.18e-18 83.2
MsaG014239 MtrunA17_Chr1g0162411 41.000 100 55 2 12 109 7 104 1.35e-17 82.4
MsaG014239 MtrunA17_Chr3g0077381 32.759 116 78 0 13 128 23 138 1.51e-17 82.4
MsaG014239 MtrunA17_Chr3g0077381 28.649 185 103 3 11 192 246 404 1.09e-14 73.9
MsaG014239 MtrunA17_Chr1g0163241 37.500 104 61 2 6 109 5 104 3.15e-17 77.4
MsaG014239 MtrunA17_Chr1g0154041 22.188 329 193 9 11 276 15 343 5.63e-17 80.9
MsaG014239 MtrunA17_Chr1g0163101 32.624 141 84 5 2 134 7 144 1.72e-16 75.9
MsaG014239 MtrunA17_Chr4g0009491 35.398 113 71 1 11 121 224 336 3.43e-16 78.2
MsaG014239 MtrunA17_Chr4g0009491 23.137 255 133 6 16 263 3 201 3.39e-14 72.4
MsaG014239 MtrunA17_Chr1g0163081 33.824 136 80 4 26 155 6 137 2.33e-15 71.6
MsaG014239 MtrunA17_Chr1g0163161 40.196 102 52 3 38 133 1 99 3.21e-15 70.9
MsaG014239 MtrunA17_Chr1g0163121 35.821 134 71 5 24 146 9 138 6.48e-15 70.5
MsaG014239 MtrunA17_Chr6g0476181 37.600 125 71 5 26 147 2 122 1.20e-14 70.1
MsaG014239 MtrunA17_Chr3g0077431 25.847 236 125 6 57 285 4 196 2.82e-14 70.1
MsaG014239 MtrunA17_Chr1g0162161 30.709 127 80 4 26 147 4 127 3.49e-14 68.9
MsaG014239 MtrunA17_Chr1g0163141 38.542 96 55 3 24 118 9 101 5.27e-14 68.9
MsaG014239 MtrunA17_Chr1g0162421 43.103 58 33 0 24 81 7 64 7.59e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014239 AT3G18990.1 26.347 334 174 10 12 280 6 332 2.70e-28 111
MsaG014239 AT3G18990.2 26.347 334 174 10 12 280 6 332 5.71e-28 111
MsaG014239 AT1G49475.1 41.525 118 65 3 12 127 34 149 3.45e-20 86.3
MsaG014239 AT4G01580.1 34.559 136 80 3 12 144 30 159 8.03e-20 85.5
MsaG014239 AT3G18960.1 38.835 103 61 1 12 112 30 132 2.57e-18 81.6
MsaG014239 AT3G18960.2 38.835 103 61 1 12 112 30 132 2.63e-18 81.3
MsaG014239 AT3G18960.3 39.773 88 53 0 25 112 8 95 2.06e-15 72.8
MsaG014239 AT4G33280.1 23.473 311 192 9 10 286 23 321 6.15e-15 74.3
MsaG014239 AT4G31640.1 25.357 280 150 11 11 280 13 243 3.21e-12 66.6
MsaG014239 AT5G18090.1 26.174 298 175 14 12 280 18 299 7.19e-12 65.1

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCGTGTTCCAACTTTAAA+TGG 0.142271 3:+69551433 MsaT014239.1:intron
GCACTAAATGGAAAGTTTAT+TGG 0.220986 3:+69549885 MsaT014239.1:CDS
AGACTCCTGATGGCACTAAA+TGG 0.296213 3:+69549873 MsaT014239.1:CDS
CTCTCTTGGACATGGCTGTT+TGG 0.307883 3:+69549967 MsaT014239.1:CDS
TTTCTAGTACTCTTCTGATT+TGG 0.316148 3:-69550145 None:intergenic
CAAGTCTTTGAAGATTAGAT+TGG 0.343046 3:-69549579 None:intergenic
GATACATTAACTATCACTTT+TGG 0.350344 3:-69551665 None:intergenic
TTTACTGAAAATTACTCTCT+TGG 0.354240 3:+69549953 MsaT014239.1:CDS
CTACTCATTTAGCAGAAAAT+CGG 0.355466 3:+69551307 MsaT014239.1:CDS
TGTTTCCTTGTAAACTCATT+TGG 0.356165 3:-69549818 None:intergenic
ATCAGAAGAGTACTAGAAAA+AGG 0.373090 3:+69550149 MsaT014239.1:CDS
AGTCTATCTCTACTGCATTC+TGG 0.373335 3:-69550039 None:intergenic
TGGTGAGATTTGGTTTGAAA+AGG 0.373936 3:+69549919 MsaT014239.1:CDS
ACATTTCTAGCCTCACAATA+AGG 0.400255 3:-69551526 None:intergenic
TCAATAACCCCATTTAAAGT+TGG 0.400471 3:-69551442 None:intergenic
TCCTGAGCTCTAGCTCCCTT+TGG 0.408256 3:-69551231 None:intergenic
ACTGATAAACAAGAAAGATA+TGG 0.417726 3:+69551624 MsaT014239.1:CDS
AAAGAACTACATCATGGAAT+TGG 0.425827 3:+69551208 MsaT014239.1:CDS
AGCGTGTTCCAACTTTAAAT+GGG 0.429597 3:+69551434 MsaT014239.1:intron
ACTTTCCATTTAGTGCCATC+AGG 0.440549 3:-69549878 None:intergenic
CGACCACATAAGAAAGTAAG+AGG 0.449011 3:+69550190 MsaT014239.1:CDS
GTCTTTGAAGATTAGATTGG+AGG 0.462905 3:-69549576 None:intergenic
AAGTTTGATGTAGTAATACT+TGG 0.466742 3:+69550016 MsaT014239.1:CDS
ACCACTTTCTCTTGCAAACA+AGG 0.468664 3:-69551572 None:intergenic
AGATTTGGTTTGAAAAGGGT+TGG 0.470784 3:+69549924 MsaT014239.1:CDS
TCTTGCAAACAAGGACCAAC+CGG 0.476293 3:-69551563 None:intergenic
ATACCTCTTACTTTCTTATG+TGG 0.489376 3:-69550193 None:intergenic
AATGTTCGCCGCCTCTCGGC+CGG 0.489655 3:+69551544 MsaT014239.1:CDS
TTGGTGGTGTTTGAATATAA+AGG 0.491592 3:+69549986 MsaT014239.1:CDS
AGTATGTGATGCTGCAGATT+GGG 0.492313 3:+69551476 MsaT014239.1:CDS
GGTGAGATTTGGTTTGAAAA+GGG 0.495938 3:+69549920 MsaT014239.1:CDS
CTTACTTTCTTATGTGGTCG+AGG 0.501623 3:-69550187 None:intergenic
TACTCATTTAGCAGAAAATC+GGG 0.503743 3:+69551308 MsaT014239.1:CDS
TCTTGGACATGGCTGTTTGG+TGG 0.505898 3:+69549970 MsaT014239.1:CDS
TAGAAATGTTCGCCGCCTCT+CGG 0.526048 3:+69551540 MsaT014239.1:CDS
TCCTTGTTTGCAAGAGAAAG+TGG 0.529022 3:+69551571 MsaT014239.1:CDS
ACATCATGGAATTGGCCAAA+GGG 0.541191 3:+69551216 MsaT014239.1:CDS
TCAGGAGTCTTTATCAACAC+TGG 0.545485 3:-69549860 None:intergenic
AGAGAAAGTGGTCTGCAAGT+AGG 0.546476 3:+69551583 MsaT014239.1:CDS
AAGTATTACTACATCAAACT+TGG 0.549129 3:-69550014 None:intergenic
GCCAAAGGGAGCTAGAGCTC+AGG 0.549833 3:+69551230 MsaT014239.1:CDS
TTCGCCGCCTCTCGGCCGGT+TGG 0.551560 3:+69551548 MsaT014239.1:CDS
AAATACCAAATGAGTTTACA+AGG 0.560882 3:+69549813 MsaT014239.1:CDS
ATACTCCATCACCCATGGCT+AGG 0.561903 3:+69549515 None:intergenic
GGTAGCATTTCTCCTAGCCA+TGG 0.566519 3:-69549527 None:intergenic
TGCAGATTGGGAAAAGATCA+TGG 0.571416 3:+69551488 MsaT014239.1:CDS
AAGTATGTGATGCTGCAGAT+TGG 0.577298 3:+69551475 MsaT014239.1:CDS
CTGGTGAAAGAACTACATCA+TGG 0.579498 3:+69551202 MsaT014239.1:CDS
AGGACCAACCGGCCGAGAGG+CGG 0.587468 3:-69551552 None:intergenic
GCAGCTGAGGTTATGAAGAC+TGG 0.589100 3:+69551183 MsaT014239.1:intron
TACATCATGGAATTGGCCAA+AGG 0.610272 3:+69551215 MsaT014239.1:CDS
GTAGCATTTCTCCTAGCCAT+GGG 0.612967 3:-69549526 None:intergenic
GATGATGAAAATGACAATGT+TGG 0.615278 3:+69550082 MsaT014239.1:CDS
GAAACTGCTTCCTTATTGTG+AGG 0.617392 3:+69551516 MsaT014239.1:CDS
GCGTGTTCCAACTTTAAATG+GGG 0.619238 3:+69551435 MsaT014239.1:intron
GAAAATTACTCTCTTGGACA+TGG 0.632483 3:+69549959 MsaT014239.1:CDS
AATGAGTTTACAAGGAAACA+TGG 0.634098 3:+69549821 MsaT014239.1:CDS
ACAAGGACCAACCGGCCGAG+AGG 0.636650 3:-69551555 None:intergenic
GTGTTGATAAAGACTCCTGA+TGG 0.643737 3:+69549863 MsaT014239.1:CDS
TCATTTAGCAGAAAATCGGG+TGG 0.719217 3:+69551311 MsaT014239.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 69549529 69551681 69549529 ID=MsaG014239
Chr3 mRNA 69549529 69551681 69549529 ID=MsaT014239.1;Parent=MsaG014239
Chr3 exon 69549529 69549600 69549529 ID=MsaT014239.1.exon1;Parent=MsaT014239.1
Chr3 CDS 69549529 69549600 69549529 ID=cds.MsaT014239.1;Parent=MsaT014239.1
Chr3 exon 69549812 69550211 69549812 ID=MsaT014239.1.exon2;Parent=MsaT014239.1
Chr3 CDS 69549812 69550211 69549812 ID=cds.MsaT014239.1;Parent=MsaT014239.1
Chr3 exon 69551187 69551332 69551187 ID=MsaT014239.1.exon3;Parent=MsaT014239.1
Chr3 CDS 69551187 69551332 69551187 ID=cds.MsaT014239.1;Parent=MsaT014239.1
Chr3 exon 69551436 69551681 69551436 ID=MsaT014239.1.exon4;Parent=MsaT014239.1
Chr3 CDS 69551436 69551681 69551436 ID=cds.MsaT014239.1;Parent=MsaT014239.1
Gene Sequence

>MsaT014239.1

ATGGCTAGGAGAAATGCTACCTTTCCAATCCATTTTTTCAAGATCATCCTCCAATCTAATCTTCAAAGACTTAAAATACCAAATGAGTTTACAAGGAAACATGGAGATAGTTTATCAAATCCAGTGTTGATAAAGACTCCTGATGGCACTAAATGGAAAGTTTATTGGAAAAAAATCAATGGTGAGATTTGGTTTGAAAAGGGTTGGAAAACTTTTACTGAAAATTACTCTCTTGGACATGGCTGTTTGGTGGTGTTTGAATATAAAGGAACTTCCAAGTTTGATGTAGTAATACTTGGCCAGAATGCAGTAGAGATAGACTATGATATTTCATGTGACACTGATGATGAAAATGACAATGTTGGTCATAGTGACGATGAATCAGTTGAGATTTTAGATGAATGGCCAAATCAGAAGAGTACTAGAAAAAGGTCGTCATTATTTTCTCCTCGACCACATAAGAAAGTAAGAGCTGAGGTTATGAAGACTGGTGAAAGAACTACATCATGGAATTGGCCAAAGGGAGCTAGAGCTCAGGAAGTAGCTTTAAAATTCATCTCAAACAATCCTTTTTTCACAATTCTCATATACCCTACTCATTTAGCAGAAAATCGGGTGCGTGTTCCAACTTTAAATGGGGTTATTGAGAACAAAGAAAAGTATGTGATGCTGCAGATTGGGAAAAGATCATGGAATCTGAAACTGCTTCCTTATTGTGAGGCTAGAAATGTTCGCCGCCTCTCGGCCGGTTGGTCCTTGTTTGCAAGAGAAAGTGGTCTGCAAGTAGGAGATGTTTGTGTCTTTGAACTGATAAACAAGAAAGATATGGTTTTTAATGTTCATATTACCAAAAGTGATAGTTAA

Protein sequence

>MsaT014239.1

MARRNATFPIHFFKIILQSNLQRLKIPNEFTRKHGDSLSNPVLIKTPDGTKWKVYWKKINGEIWFEKGWKTFTENYSLGHGCLVVFEYKGTSKFDVVILGQNAVEIDYDISCDTDDENDNVGHSDDESVEILDEWPNQKSTRKRSSLFSPRPHKKVRAEVMKTGERTTSWNWPKGARAQEVALKFISNNPFFTILIYPTHLAENRVRVPTLNGVIENKEKYVMLQIGKRSWNLKLLPYCEARNVRRLSAGWSLFARESGLQVGDVCVFELINKKDMVFNVHITKSDS*