AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006852

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006852 MtrunA17_Chr2g0286191 85.285 333 49 0 2 334 34 366 0.0 588
MsaG006852 MtrunA17_Chr2g0295761 48.204 334 158 5 2 327 63 389 1.87e-100 301
MsaG006852 MtrunA17_Chr2g0295731 46.224 331 172 4 1 327 49 377 2.49e-98 295
MsaG006852 MtrunA17_Chr4g0067121 46.201 329 172 4 2 327 54 380 2.01e-94 286
MsaG006852 MtrunA17_Chr2g0295741 46.526 331 167 5 3 327 50 376 4.61e-94 285
MsaG006852 MtrunA17_Chr2g0296151 46.667 330 170 4 2 327 43 370 8.50e-92 278
MsaG006852 MtrunA17_Chr2g0296121 46.809 329 169 4 3 327 130 456 9.93e-92 281
MsaG006852 MtrunA17_Chr2g0296111 46.726 336 160 6 3 327 43 370 5.16e-87 266
MsaG006852 MtrunA17_Chr2g0286221 76.074 163 39 0 169 331 11 173 9.20e-87 259
MsaG006852 MtrunA17_Chr2g0296301 42.945 326 184 2 3 326 40 365 2.38e-86 265
MsaG006852 MtrunA17_Chr2g0296711 41.983 343 180 7 4 334 58 393 3.70e-80 250
MsaG006852 MtrunA17_Chr2g0296291 39.617 366 179 6 2 327 35 398 4.51e-77 242
MsaG006852 MtrunA17_Chr2g0296251 39.516 372 171 7 2 327 35 398 1.78e-73 232
MsaG006852 MtrunA17_Chr4g0067671 41.456 316 169 6 3 310 48 355 2.64e-73 230
MsaG006852 MtrunA17_Chr4g0067141 40.059 337 187 5 2 331 47 375 3.40e-73 231
MsaG006852 MtrunA17_Chr2g0296191 40.964 332 182 4 2 326 185 509 5.37e-72 241
MsaG006852 MtrunA17_Chr2g0296191 40.597 335 178 8 4 324 667 994 9.91e-64 218
MsaG006852 MtrunA17_Chr2g0315731 40.719 334 185 7 3 327 74 403 5.96e-72 229
MsaG006852 MtrunA17_Chr2g0296741 40.118 339 180 8 3 327 74 403 1.52e-71 228
MsaG006852 MtrunA17_Chr2g0296231 40.950 337 178 8 3 327 53 380 2.92e-70 224
MsaG006852 MtrunA17_Chr2g0296721 40.181 331 190 5 3 327 54 382 4.40e-70 223
MsaG006852 MtrunA17_Chr2g0296221 41.124 338 178 8 4 327 84 414 1.20e-69 223
MsaG006852 MtrunA17_Chr2g0296171 40.588 340 181 8 4 329 65 397 4.55e-69 221
MsaG006852 MtrunA17_Chr4g0001831 37.838 333 200 4 2 328 40 371 2.24e-65 210
MsaG006852 MtrunA17_Chr2g0296181 38.369 331 170 6 3 327 55 357 1.62e-61 201
MsaG006852 MtrunA17_Chr2g0296131 49.020 153 76 2 176 326 9 161 9.31e-43 145
MsaG006852 MtrunA17_Chr2g0296551 44.505 182 97 3 148 327 5 184 1.59e-42 146
MsaG006852 MtrunA17_Chr2g0296161 50.000 156 76 2 174 327 3 158 2.05e-42 145
MsaG006852 MtrunA17_Chr2g0296211 34.708 291 159 8 59 327 77 358 3.82e-41 147
MsaG006852 MtrunA17_Chr2g0296701 48.684 152 76 2 178 327 5 156 2.29e-39 137
MsaG006852 MtrunA17_Chr2g0295711 46.528 144 75 1 5 146 52 195 1.05e-35 128
MsaG006852 MtrunA17_Chr8g0377781 31.650 297 196 5 30 321 74 368 1.37e-35 132
MsaG006852 MtrunA17_Chr2g0296751 50.394 127 62 1 202 327 3 129 8.19e-34 122
MsaG006852 MtrunA17_Chr8g0377801 28.852 305 210 5 26 325 83 385 1.65e-33 127
MsaG006852 MtrunA17_Chr2g0295721 51.754 114 54 1 174 286 3 116 2.20e-32 117
MsaG006852 MtrunA17_Chr2g0295751 50.806 124 59 1 4 125 52 175 2.99e-32 125
MsaG006852 MtrunA17_Chr2g0296561 46.535 101 54 0 1 101 38 138 6.78e-22 90.5
MsaG006852 MtrunA17_Chr4g0067131 46.914 81 42 1 244 323 1 81 3.55e-17 75.5
MsaG006852 MtrunA17_Chr8g0339041 20.772 337 234 12 12 328 28 351 7.67e-13 68.6
MsaG006852 MtrunA17_Chr4g0067681 48.333 60 31 0 233 292 1 60 3.06e-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
MsaG006852 AT5G07900.1 37.690 329 199 4 2 324 71 399 4.02e-74 234
MsaG006852 AT1G21150.1 34.234 333 213 3 2 328 58 390 1.77e-58 193
MsaG006852 AT1G21150.3 33.832 334 215 3 1 328 21 354 2.96e-58 192
MsaG006852 AT1G21150.2 34.234 333 213 3 2 328 122 454 8.24e-58 193
MsaG006852 AT1G61980.3 28.763 372 206 11 2 324 54 415 3.15e-40 146
MsaG006852 AT1G61980.2 28.763 372 206 11 2 324 54 415 3.15e-40 146
MsaG006852 AT1G61980.1 28.763 372 206 11 2 324 54 415 3.15e-40 146
MsaG006852 AT1G61970.2 27.346 373 210 10 2 324 54 415 1.79e-37 139
MsaG006852 AT1G61970.7 27.346 373 210 10 2 324 54 415 1.79e-37 139
MsaG006852 AT1G61970.6 27.346 373 210 10 2 324 54 415 1.79e-37 139
MsaG006852 AT1G61970.3 27.346 373 210 10 2 324 54 415 1.79e-37 139
MsaG006852 AT1G61970.5 27.346 373 210 10 2 324 54 415 1.79e-37 139
MsaG006852 AT1G61970.4 27.346 373 210 10 2 324 54 415 1.79e-37 139
MsaG006852 AT1G61970.1 27.346 373 210 10 2 324 54 415 1.79e-37 139
MsaG006852 AT1G62120.1 27.078 373 221 11 2 328 58 425 3.72e-37 138
MsaG006852 AT1G61990.2 27.473 364 214 9 2 324 54 408 1.27e-36 136
MsaG006852 AT1G61990.1 27.473 364 214 9 2 324 54 408 1.27e-36 136
MsaG006852 AT1G62010.1 27.794 349 197 9 26 328 64 403 6.11e-35 132
MsaG006852 AT1G62110.1 27.857 420 202 14 2 331 54 462 1.09e-34 132
MsaG006852 AT1G61960.1 27.228 404 207 13 2 324 54 451 1.14e-34 132
MsaG006852 AT1G62085.1 27.586 406 212 12 2 328 57 459 3.59e-34 130
MsaG006852 AT1G62085.2 27.586 406 212 12 2 328 57 459 3.59e-34 130
MsaG006852 AT5G23930.1 28.316 392 201 9 2 320 57 441 6.44e-34 130
MsaG006852 AT3G46950.1 32.231 242 154 5 2 240 54 288 7.60e-32 124
MsaG006852 AT1G62150.1 25.616 406 219 11 2 328 60 461 8.87e-32 124
MsaG006852 AT5G64950.1 27.164 335 225 7 7 325 45 376 1.93e-26 108
MsaG006852 AT1G56380.1 25.401 374 223 12 1 324 17 384 4.97e-24 101
MsaG006852 AT1G56380.2 25.824 364 216 11 1 316 28 385 6.47e-24 101
MsaG006852 AT1G79220.1 25.000 300 182 6 36 329 119 381 8.11e-15 75.1

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCTTTCCCATACGGATTT+TGG 0.131006 2:-10743010 None:intergenic
GAAAGAAGGAAATTGAATTT+AGG 0.170730 2:-10742617 None:intergenic
AGACAACATAAGAGGATTTC+TGG 0.180313 2:-10742678 None:intergenic
ATTCAATTTCCTTCTTTCTA+AGG 0.183402 2:+10742622 MsaT006852.1:CDS
AAAGAAGGAAATTGAATTTA+GGG 0.185509 2:-10742616 None:intergenic
GATGCTTCAACTTTCAAATA+AGG 0.222209 2:+10743394 MsaT006852.1:CDS
ATTCAATCCCTGCTTCAAAA+TGG 0.240883 2:+10742830 MsaT006852.1:CDS
GAGAGTTTAGAAGCAGTTTC+TGG 0.245687 2:-10742449 None:intergenic
AATACTTCTTATGCTGAGTT+TGG 0.261332 2:+10743195 MsaT006852.1:CDS
TCAATCCAAAGGTTTGATTA+AGG 0.262442 2:+10743258 MsaT006852.1:CDS
GAGATGGGAATTTAGAATAA+AGG 0.311834 2:-10742802 None:intergenic
TTCAATCCCTGCTTCAAAAT+GGG 0.343027 2:+10742831 MsaT006852.1:CDS
AATAAGGCGATGACTGAATC+AGG 0.360376 2:-10742503 None:intergenic
AGTATTTGAGAAGGCAGTTT+TGG 0.367653 2:+10742919 MsaT006852.1:CDS
GATTAATGCGTATAAGAAAT+GGG 0.369032 2:+10743033 MsaT006852.1:CDS
TTTGATGAGAGATGATAATT+GGG 0.380318 2:-10742549 None:intergenic
AGATTAATGCGTATAAGAAA+TGG 0.381339 2:+10743032 MsaT006852.1:CDS
GAAATTGAATTTAGGGAGAA+TGG 0.403378 2:-10742609 None:intergenic
TTCAATTTCCTTCTTTCTAA+GGG 0.407285 2:+10742623 MsaT006852.1:CDS
AGCATCCTTAATCAAACCTT+TGG 0.408692 2:-10743263 None:intergenic
GAAACCATAGGATTTGAATA+AGG 0.422117 2:-10742519 None:intergenic
AAGCTTTGAGACAACATAAG+AGG 0.427786 2:-10742686 None:intergenic
AACTACCTCATTCAAAATTG+TGG 0.437653 2:+10742419 MsaT006852.1:CDS
TCTTATGTTGTCTCAAAGCT+TGG 0.442901 2:+10742688 MsaT006852.1:CDS
ATCGCCTTATTCAAATCCTA+TGG 0.446132 2:+10742515 MsaT006852.1:CDS
TTGAAGCACCCTTAGAAAGA+AGG 0.450723 2:-10742631 None:intergenic
AAACTCAGCATAAGAAGTAT+TGG 0.453268 2:-10743193 None:intergenic
ACTACCTCATTCAAAATTGT+GGG 0.457092 2:+10742420 MsaT006852.1:CDS
TCTTAGCATGCAGCGCGATA+AGG 0.457183 2:-10742982 None:intergenic
TTGAAATTTCTTCAATCCAA+AGG 0.481678 2:+10743247 MsaT006852.1:CDS
CAGAGACTTTGAAAGGTGTA+GGG 0.502615 2:-10743291 None:intergenic
ATTAATCTTCCTTTCCCATA+CGG 0.515016 2:-10743017 None:intergenic
GTCCAAAATCCGTATGGGAA+AGG 0.543559 2:+10743008 MsaT006852.1:CDS
ACTGCCTTCTCAAATACTGC+AGG 0.547454 2:-10742914 None:intergenic
AGATTAGTCCAAAATCCGTA+TGG 0.549136 2:+10743002 MsaT006852.1:CDS
TCAATCCCTGCTTCAAAATG+GGG 0.550397 2:+10742832 MsaT006852.1:CDS
GAAGTATCCATGGTGTATGT+TGG 0.562557 2:+10743090 MsaT006852.1:CDS
ATGGTGTATGTTGGCATCTG+TGG 0.563796 2:+10743099 MsaT006852.1:CDS
TCAGAGACTTTGAAAGGTGT+AGG 0.564549 2:-10743292 None:intergenic
GCAATGTTTGAGAGCTGCAA+TGG 0.572268 2:-10742771 None:intergenic
ATCTCTCATCAAAACTCGCA+CGG 0.575191 2:+10742559 MsaT006852.1:CDS
TTTGATAAAATGATAACAAG+GGG 0.581767 2:-10742723 None:intergenic
AATTTCAACGCAAAAGCCCT+AGG 0.586081 2:-10743232 None:intergenic
GATTAGTCCAAAATCCGTAT+GGG 0.594092 2:+10743003 MsaT006852.1:CDS
ATTAATGCGTATAAGAAATG+GGG 0.599170 2:+10743034 MsaT006852.1:CDS
TTGGGAATTAGAGAAACCAT+AGG 0.600081 2:-10742531 None:intergenic
GAAACCTGCAGTATTTGAGA+AGG 0.606941 2:+10742910 MsaT006852.1:CDS
GAGATATGTGAATTGCTATG+AGG 0.610774 2:+10743330 MsaT006852.1:CDS
AGATCCTCAGAGACTTTGAA+AGG 0.621290 2:-10743298 None:intergenic
ATGCGTATAAGAAATGGGGT+TGG 0.624037 2:+10743038 MsaT006852.1:CDS
AGAGACTTTGAAAGGTGTAG+GGG 0.645255 2:-10743290 None:intergenic
TACACCTTTCAAAGTCTCTG+AGG 0.664130 2:+10743294 MsaT006852.1:CDS
ACAGATGCCAACATACACCA+TGG 0.670800 2:-10743097 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 10740191 10743414 10740191 ID=MsaG006852
Chr2 mRNA 10740191 10743414 10740191 ID=MsaT006852.1;Parent=MsaG006852
Chr2 exon 10740191 10740197 10740191 ID=MsaT006852.1.exon1;Parent=MsaT006852.1
Chr2 CDS 10740191 10740197 10740191 ID=cds.MsaT006852.1;Parent=MsaT006852.1
Chr2 exon 10742417 10743414 10742417 ID=MsaT006852.1.exon2;Parent=MsaT006852.1
Chr2 CDS 10742417 10743414 10742417 ID=cds.MsaT006852.1;Parent=MsaT006852.1
Gene Sequence

>MsaT006852.1

ATGACAATCAACTACCTCATTCAAAATTGTGGGTTTTCACCAGAAACTGCTTCTAAACTCTCTAAACGAGTTCATCTCAACAACTCACAAAAACCTGATTCAGTCATCGCCTTATTCAAATCCTATGGTTTCTCTAATTCCCAATTATCATCTCTCATCAAAACTCGCACGGATATTCTCTCTTATGATCCCAACAAAACCATTCTCCCTAAATTCAATTTCCTTCTTTCTAAGGGTGCTTCAAATTCAGATCTTGTTCACATCATCACCAGAAATCCTCTTATGTTGTCTCAAAGCTTGGAAAATACAATAACCCCTTGTTATCATTTTATCAAAAGATTCTTACTTTCTGATCAATCTACCATTGCAGCTCTCAAACATTGCTCTTGTTTCCTTTATTCTAAATTCCCATCTCAAAATATTCAATCCCTGCTTCAAAATGGGGTTCCTGAATCCAAAATTGTTTTTTTGTTTCGAAATTGGTATAACATGCTCTCTAAGAAACCTGCAGTATTTGAGAAGGCAGTTTTGGAAGTAAAACAATTAGGATTCAATCCTAACAATACGTTTTTCCTTATCGCGCTGCATGCTAAGATTAGTCCAAAATCCGTATGGGAAAGGAAGATTAATGCGTATAAGAAATGGGGTTGGTCTGATGAAGTTATTGTCTCAGCATTTTTGAAGTATCCATGGTGTATGTTGGCATCTGTGGAAAAAATTGAAGCAGTGATGCAGTTTTTTGTCAATCACATGGGTTGGGAGTCTAATGTGCTTGCGAAATATCCAATACTTCTTATGCTGAGTTTGGAAAAAAGGGTTATTCCTAGGGCTTTTGCGTTGAAATTTCTTCAATCCAAAGGTTTGATTAAGGATGCTAAGTCCCCTACACCTTTCAAAGTCTCTGAGGATCTGTTTTTGAAGAGATATGTGAATTGCTATGAGGAAGAAGCATCTCAGCTGTTGAAGTTGTATGAAGAGAAAAGAGATGCTTCAACTTTCAAATAA
Protein sequence

>MsaT006852.1

MTINYLIQNCGFSPETASKLSKRVHLNNSQKPDSVIALFKSYGFSNSQLSSLIKTRTDILSYDPNKTILPKFNFLLSKGASNSDLVHIITRNPLMLSQSLENTITPCYHFIKRFLLSDQSTIAALKHCSCFLYSKFPSQNIQSLLQNGVPESKIVFLFRNWYNMLSKKPAVFEKAVLEVKQLGFNPNNTFFLIALHAKISPKSVWERKINAYKKWGWSDEVIVSAFLKYPWCMLASVEKIEAVMQFFVNHMGWESNVLAKYPILLMLSLEKRVIPRAFALKFLQSKGLIKDAKSPTPFKVSEDLFLKRYVNCYEEEASQLLKLYEEKRDASTFK*