AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017571


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017571 MtrunA17_Chr3g0141931 96.652 448 10 3 1 448 1 443 0.0 885
MsaG017571 MtrunA17_Chr1g0155681 50.903 277 105 8 173 432 173 435 6.95e-78 254
MsaG017571 MtrunA17_Chr3g0141941 45.833 288 120 7 163 432 155 424 1.20e-70 232
MsaG017571 MtrunA17_Chr4g0025521 45.936 283 135 6 170 442 217 491 1.43e-66 226
MsaG017571 MtrunA17_Chr5g0403251 43.000 300 150 9 136 427 312 598 4.01e-65 223
MsaG017571 MtrunA17_Chr7g0267481 46.154 286 121 6 168 432 169 442 7.31e-65 220
MsaG017571 MtrunA17_Chr1g0177751 45.418 251 129 4 169 414 160 407 2.18e-64 219
MsaG017571 MtrunA17_Chr8g0373801 44.322 273 135 6 170 431 388 654 3.76e-63 218
MsaG017571 MtrunA17_Chr4g0008591 41.697 271 127 5 167 431 193 438 1.85e-61 210
MsaG017571 MtrunA17_Chr4g0028701 37.681 345 163 7 140 432 205 549 1.97e-61 211
MsaG017571 MtrunA17_Chr7g0240371 42.322 267 135 4 167 431 134 383 1.58e-59 202
MsaG017571 MtrunA17_Chr2g0327021 40.461 304 138 8 159 432 230 520 1.69e-57 199
MsaG017571 MtrunA17_Chr8g0387321 55.307 179 70 5 243 416 259 432 2.13e-57 199
MsaG017571 MtrunA17_Chr1g0151681 36.090 266 148 7 167 422 240 493 1.33e-39 149
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017571 AT1G75430.1 60.377 265 96 6 173 431 19 280 7.78e-106 316
MsaG017571 AT1G75410.1 49.265 272 126 4 162 429 159 422 1.13e-77 251
MsaG017571 AT1G75410.2 49.265 272 126 4 162 429 159 422 1.13e-77 251
MsaG017571 AT1G19700.1 49.291 282 114 6 164 429 159 427 4.94e-77 250
MsaG017571 AT1G19700.3 49.291 282 114 6 164 429 159 427 4.94e-77 250
MsaG017571 AT1G19700.5 49.291 282 114 6 164 429 159 427 4.94e-77 250
MsaG017571 AT1G19700.4 49.291 282 114 6 164 429 159 427 4.94e-77 250
MsaG017571 AT1G19700.2 49.291 282 114 6 164 429 159 427 4.94e-77 250
MsaG017571 AT2G16400.1 47.059 289 129 7 148 433 98 365 8.77e-77 248
MsaG017571 AT4G34610.2 48.175 274 119 7 170 437 140 396 3.05e-70 232
MsaG017571 AT4G34610.4 48.175 274 119 7 170 437 140 396 3.05e-70 232
MsaG017571 AT4G34610.3 48.175 274 119 7 170 437 140 396 3.05e-70 232
MsaG017571 AT4G34610.1 48.175 274 119 7 170 437 140 396 3.05e-70 232
MsaG017571 AT1G75430.2 54.460 213 88 6 173 379 19 228 2.53e-67 217
MsaG017571 AT4G36870.2 46.269 268 117 10 170 422 312 567 1.97e-61 213
MsaG017571 AT4G36870.1 46.269 268 117 10 170 422 312 567 1.97e-61 213
MsaG017571 AT2G35940.3 41.577 279 129 6 163 414 175 446 6.97e-58 202
MsaG017571 AT2G35940.1 41.577 279 129 6 163 414 175 446 6.97e-58 202
MsaG017571 AT2G35940.2 41.577 279 129 6 163 414 175 446 6.97e-58 202
MsaG017571 AT2G23760.2 44.361 266 124 5 170 421 237 492 1.99e-57 200
MsaG017571 AT2G23760.1 44.361 266 124 5 170 421 237 492 1.99e-57 200
MsaG017571 AT2G23760.3 44.361 266 124 5 170 421 237 492 1.99e-57 200
MsaG017571 AT2G27220.1 42.972 249 109 4 176 423 82 298 3.50e-57 195
MsaG017571 AT2G27220.3 42.972 249 109 4 176 423 82 298 3.50e-57 195
MsaG017571 AT5G02030.1 37.377 305 174 3 125 423 125 418 7.94e-57 197
MsaG017571 AT1G75410.3 44.444 243 123 4 162 400 159 393 2.06e-55 189
MsaG017571 AT2G27220.2 42.205 263 109 8 176 423 82 316 6.75e-55 189
MsaG017571 AT2G27990.1 40.769 260 127 4 167 423 259 494 1.73e-53 188
MsaG017571 AT5G41410.1 40.702 285 141 5 171 433 194 472 1.95e-51 183
MsaG017571 AT2G23760.4 37.383 321 119 9 170 421 237 544 7.62e-48 174
MsaG017571 AT4G36870.4 42.915 247 114 10 170 401 312 546 2.79e-45 166
MsaG017571 AT4G36870.3 42.449 245 114 10 170 399 312 544 4.68e-44 162
MsaG017571 AT4G32980.1 36.299 281 147 6 152 422 183 441 1.07e-39 149
MsaG017571 AT4G32980.2 36.299 281 147 6 152 422 183 441 1.07e-39 149
MsaG017571 AT2G27990.2 34.259 216 115 4 167 379 259 450 1.07e-27 115

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGGATTCATGGACATTTAT+TGG 0.202908 3:-110761172 MsaT017571.1:CDS
GATCATAAGACCTTGATTTA+AGG 0.203423 3:+110761566 None:intergenic
CGTTCTACTTCTACTTCTTA+TGG 0.209074 3:-110761381 MsaT017571.1:CDS
TGAGAAAAGAAAACTGTTTC+AGG 0.210768 3:-110760309 MsaT017571.1:CDS
AGCATTTATTTGGGACATTA+TGG 0.234641 3:+110760331 None:intergenic
AGAATTGCTACAGATGTTTC+AGG 0.303192 3:+110760149 None:intergenic
CAAGGTCTATCCCTTTCTTT+AGG 0.320317 3:-110761624 MsaT017571.1:CDS
ATACTACTTCTTCCATTTGA+TGG 0.326054 3:+110760450 None:intergenic
TTGTACATTTCTTCTATCAT+TGG 0.327367 3:+110759682 None:intergenic
CACCACCTAGTAGTAGTTCT+TGG 0.332157 3:+110761805 None:intergenic
TTCAAAACCAACGACAAGTT+TGG 0.336930 3:-110760190 MsaT017571.1:CDS
GAAGTGACTGTACTGGTTTA+AGG 0.338310 3:+110761319 None:intergenic
TGCAAAGCTCATTTCATTGT+TGG 0.340662 3:-110761121 MsaT017571.1:CDS
TTACACTGCTTTGGCACTTC+AGG 0.345280 3:-110760387 MsaT017571.1:CDS
AGATGTCACTGTGGAGGATT+AGG 0.348390 3:-110759596 None:intergenic
AGCTGGCGGGTTGGAGTCTT+CGG 0.349210 3:+110759639 None:intergenic
ATTAACTTCTCAGAGTCATT+AGG 0.369658 3:+110759993 None:intergenic
GAAATGTACAAAGAAGAGTT+TGG 0.376842 3:-110759670 MsaT017571.1:CDS
GTTTCAGGTAACCCTCTAAT+AGG 0.383713 3:+110760164 None:intergenic
CTTGAAGATCTTGTTGATGT+TGG 0.386052 3:-110761297 MsaT017571.1:CDS
TTAATCCTGGCTTCCCAAAC+AGG 0.402326 3:-110759975 MsaT017571.1:CDS
GAGTCACACAAGACATTTGA+TGG 0.404453 3:-110761688 MsaT017571.1:CDS
TGTTGGTTCAGGTGTCAAAT+TGG 0.407480 3:-110759735 MsaT017571.1:intron
TTTGAAATGATAGCAGGTTT+GGG 0.408450 3:-110760422 MsaT017571.1:CDS
TGCAAAGTGTTACACTGCTT+TGG 0.409703 3:-110760396 MsaT017571.1:CDS
AAAGCAGAGTTGAGGATTCA+TGG 0.417721 3:-110761183 MsaT017571.1:CDS
TCTTATGGAAGTGAGAGTTT+TGG 0.428359 3:-110761366 MsaT017571.1:CDS
TTGTTTCATGGGAGTAGAAC+AGG 0.428923 3:-110761231 MsaT017571.1:CDS
CTGTAGCAATTCTTCGTGCT+TGG 0.430609 3:-110760139 MsaT017571.1:CDS
TTCAATGGTGGAAATGGAGG+TGG 0.430738 3:-110761456 MsaT017571.1:CDS
TATGCTGAGAAGTTGTTTCA+TGG 0.434153 3:-110761243 MsaT017571.1:CDS
GAATCCTCAACTCTGCTTTG+AGG 0.436275 3:+110761187 None:intergenic
TGACCAGGCATGAAGTAACT+TGG 0.451078 3:+110761540 None:intergenic
CAAGTTTGGAGACCTATTAG+AGG 0.455849 3:-110760176 MsaT017571.1:CDS
GGGATAGACCTTGTTGTGTC+TGG 0.465614 3:+110761634 None:intergenic
TTAAACCTGTTTGGGAAGCC+AGG 0.480873 3:+110759970 None:intergenic
CTTGACATAAAATTGTTAGC+TGG 0.489551 3:+110759622 None:intergenic
TGACTCTGAGAAGTTAATCC+TGG 0.499019 3:-110759988 MsaT017571.1:CDS
TTTGAATGACACCAAGTTGT+TGG 0.503416 3:+110760207 None:intergenic
GCTCATTTCATTGTTGGATG+AGG 0.504055 3:-110761115 MsaT017571.1:intron
CTTGTTAGATTCTCCACCAC+AGG 0.504734 3:+110761489 None:intergenic
TGAGAAGTACTACCATCAAA+TGG 0.506912 3:-110760462 MsaT017571.1:CDS
TCCACCACAGGTTGATTACA+AGG 0.508130 3:+110761501 None:intergenic
GAAGATCTTGTTGATGTTGG+TGG 0.515827 3:-110761294 MsaT017571.1:CDS
AACCCAAGTTACTTCATGCC+TGG 0.516099 3:-110761543 MsaT017571.1:CDS
TTAATGCAAGGGTACGGCTA+TGG 0.523142 3:-110759708 MsaT017571.1:CDS
CAAATTGGTTCATTAATGCA+AGG 0.528439 3:-110759720 MsaT017571.1:CDS
CATGTGAGAGCCTAAAGAAA+GGG 0.530908 3:+110761614 None:intergenic
ATGCTGAGAAGTTGTTTCAT+GGG 0.532525 3:-110761242 MsaT017571.1:CDS
TGGCACTTCAGGCAATGTCT+AGG 0.533896 3:-110760376 MsaT017571.1:CDS
TCTTCAAGAAGTGACTGTAC+TGG 0.534996 3:+110761312 None:intergenic
ACATAAAATTGTTAGCTGGC+GGG 0.535342 3:+110759626 None:intergenic
AGAAACCGTTCCTTAAATCA+AGG 0.535526 3:-110761576 MsaT017571.1:CDS
TAGGTCTCCAAACTTGTCGT+TGG 0.537318 3:+110760183 None:intergenic
GATGTACCTAAAATTAATAG+TGG 0.538946 3:-110760287 MsaT017571.1:CDS
GCATGTGAGAGCCTAAAGAA+AGG 0.546878 3:+110761613 None:intergenic
TAAGACCTTGATTTAAGGAA+CGG 0.549373 3:+110761571 None:intergenic
AGACATTTGATGGATCTACT+TGG 0.551807 3:-110761678 MsaT017571.1:CDS
AAAATTGTTAGCTGGCGGGT+TGG 0.557706 3:+110759630 None:intergenic
AGAATGTCTCTCCAACAACT+TGG 0.557966 3:-110760218 MsaT017571.1:CDS
GACCAGGCATGAAGTAACTT+GGG 0.566873 3:+110761541 None:intergenic
GAGAACCAAGAACTACTACT+AGG 0.567546 3:-110761810 MsaT017571.1:CDS
GGTTCATTAATGCAAGGGTA+CGG 0.572871 3:-110759714 MsaT017571.1:CDS
AAATTGGTTCATTAATGCAA+GGG 0.576729 3:-110759719 MsaT017571.1:CDS
GACATAAAATTGTTAGCTGG+CGG 0.577181 3:+110759625 None:intergenic
AAGTTTGGAGACCTATTAGA+GGG 0.581283 3:-110760175 MsaT017571.1:CDS
TCACGTGTCTGATCTTGACC+AGG 0.591778 3:+110761525 None:intergenic
CAACTCTGCTTTGAGGTCAG+AGG 0.594657 3:+110761194 None:intergenic
CATAAGAAGTAGAAGTAGAA+CGG 0.599560 3:+110761382 None:intergenic
AATGCATATCATGAATCACT+TGG 0.609154 3:-110761753 MsaT017571.1:CDS
AACAATATTGGACTAACACA+AGG 0.620037 3:-110761720 MsaT017571.1:CDS
GCCTTGTAATCAACCTGTGG+TGG 0.623528 3:-110761502 MsaT017571.1:CDS
AATAATCACCAGACACAACA+AGG 0.630483 3:-110761642 MsaT017571.1:CDS
AAGGGAAGATGTCACTGTGG+AGG 0.641601 3:-110759602 MsaT017571.1:CDS
CAAGAACTACTACTAGGTGG+TGG 0.646214 3:-110761804 MsaT017571.1:CDS
CTGACCTCAAAGCAGAGTTG+AGG 0.668038 3:-110761191 MsaT017571.1:CDS
AACCAAGAACTACTACTAGG+TGG 0.711092 3:-110761807 MsaT017571.1:CDS
TGAGCCTTGTAATCAACCTG+TGG 0.732645 3:-110761505 MsaT017571.1:CDS
GTCAAGGGAAGATGTCACTG+TGG 0.757361 3:-110759605 MsaT017571.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 110759597 110761868 110759597 ID=MsaG017571
Chr3 mRNA 110759597 110761868 110759597 ID=MsaT017571.1;Parent=MsaG017571
Chr3 exon 110759597 110759746 110759597 ID=MsaT017571.1.exon4;Parent=MsaT017571.1
Chr3 CDS 110759597 110759746 110759597 ID=cds.MsaT017571.1;Parent=MsaT017571.1
Chr3 exon 110759959 110760019 110759959 ID=MsaT017571.1.exon3;Parent=MsaT017571.1
Chr3 CDS 110759959 110760019 110759959 ID=cds.MsaT017571.1;Parent=MsaT017571.1
Chr3 exon 110760116 110760498 110760116 ID=MsaT017571.1.exon2;Parent=MsaT017571.1
Chr3 CDS 110760116 110760498 110760116 ID=cds.MsaT017571.1;Parent=MsaT017571.1
Chr3 exon 110761116 110761868 110761116 ID=MsaT017571.1.exon1;Parent=MsaT017571.1
Chr3 CDS 110761116 110761868 110761116 ID=cds.MsaT017571.1;Parent=MsaT017571.1
Gene Sequence

>MsaT017571.1

ATGATGTCAAACTCCATGACCCATCAAAATCAATTTGAGAACCAAGAACTACTACTAGGTGGTGGTTATGTTTCATCTTCTTTGAGAAACAACAATGCATATCATGAATCACTTGGAACATTTTCTAACAATATTGGACTAACACAAGGTTCTGAGATGAGTCACACAAGACATTTGATGGATCTACTTGGTGCAGCAAACGAGAATAATCACCAGACACAACAAGGTCTATCCCTTTCTTTAGGCTCTCACATGCTTGTTGATGAATACAGAAACCGTTCCTTAAATCAAGGTCTTATGATCAACCCAAGTTACTTCATGCCTGGTCAAGATCAGACACGTGAGCCTTGTAATCAACCTGTGGTGGAGAATCTAACAAGTGATTATTTTTTCAATGGTGGAAATGGAGGTGGAACTTTTGCTTCAGGTTCTAATAATAATAATAATAATAACTCATTATTGAACCGTTCTACTTCTACTTCTTATGGAAGTGAGAGTTTTGGTTCTGTTATTGGGAACTCTAGATACCTTAAACCAGTACAGTCACTTCTTGAAGATCTTGTTGATGTTGGTGGAAATGTGATTGATAGAATGAATGAAAAGTATGCTGAGAAGTTGTTTCATGGGAGTAGAACAGGTGCTAGAACACTCTCCTCTGACCTCAAAGCAGAGTTGAGGATTCATGGACATTTATTGGCTGACAAACATCAACATCAAGTCAATATTGCAAAGCTCATTTCATTGTTGGATGAGGTTGAGGGTAGATATGAGAAGTACTACCATCAAATGGAAGAAGTAGTATCATCTTTTGAAATGATAGCAGGTTTGGGAGCTGCAAAGTGTTACACTGCTTTGGCACTTCAGGCAATGTCTAGGCATTTTTGTAGCTTAAGAGATGCCATAATGTCCCAAATAAATGCTGAGAAAAGAAAACTGTTTCAGGATGTACCTAAAATTAATAGTGGATTGTCTCAACTGAGCTTATTTGAGAGAGATAATAATAGACAGAATAGAATGTCTCTCCAACAACTTGGTGTCATTCAAAACCAACGACAAGTTTGGAGACCTATTAGAGGGTTACCTGAAACATCTGTAGCAATTCTTCGTGCTTGGCTCTTTGAGCACTTTCTTCATCCCTATCCTAATGACTCTGAGAAGTTAATCCTGGCTTCCCAAACAGGTTTAACCAAAAACCAAGTGTCAAATTGGTTCATTAATGCAAGGGTACGGCTATGGAAACCAATGATAGAAGAAATGTACAAAGAAGAGTTTGGAGACTCTTCCGAAGACTCCAACCCGCCAGCTAACAATTTTATGTCAAGGGAAGATGTCACTGTGGAGGATTAG

Protein sequence

>MsaT017571.1

MMSNSMTHQNQFENQELLLGGGYVSSSLRNNNAYHESLGTFSNNIGLTQGSEMSHTRHLMDLLGAANENNHQTQQGLSLSLGSHMLVDEYRNRSLNQGLMINPSYFMPGQDQTREPCNQPVVENLTSDYFFNGGNGGGTFASGSNNNNNNNSLLNRSTSTSYGSESFGSVIGNSRYLKPVQSLLEDLVDVGGNVIDRMNEKYAEKLFHGSRTGARTLSSDLKAELRIHGHLLADKHQHQVNIAKLISLLDEVEGRYEKYYHQMEEVVSSFEMIAGLGAAKCYTALALQAMSRHFCSLRDAIMSQINAEKRKLFQDVPKINSGLSQLSLFERDNNRQNRMSLQQLGVIQNQRQVWRPIRGLPETSVAILRAWLFEHFLHPYPNDSEKLILASQTGLTKNQVSNWFINARVRLWKPMIEEMYKEEFGDSSEDSNPPANNFMSREDVTVED*