AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004273


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004273 MtrunA17_Chr1g0194621 96.687 483 16 0 5 487 38 520 0.0 974
MsaG004273 MtrunA17_Chr7g0270031 58.761 468 172 9 29 487 101 556 0.0 525
MsaG004273 MtrunA17_Chr2g0294461 45.951 494 244 10 6 487 105 587 3.37e-135 402
MsaG004273 MtrunA17_Chr2g0294471 44.490 490 241 9 20 487 98 578 8.60e-127 380
MsaG004273 MtrunA17_Chr4g0057891 30.691 391 244 13 108 485 144 520 6.45e-41 154
MsaG004273 MtrunA17_Chr7g0224271 28.967 397 261 11 100 485 287 673 2.76e-39 151
MsaG004273 MtrunA17_Chr3g0110971 26.161 409 256 10 99 486 205 588 7.71e-39 149
MsaG004273 MtrunA17_Chr8g0357601 29.136 405 263 12 92 485 161 552 2.98e-38 147
MsaG004273 MtrunA17_Chr8g0376381 24.427 393 268 6 99 486 155 523 5.72e-37 142
MsaG004273 MtrunA17_Chr7g0238891 28.351 388 254 11 108 485 367 740 2.02e-34 137
MsaG004273 MtrunA17_Chr2g0306641 26.396 394 258 8 103 485 115 487 1.01e-32 130
MsaG004273 MtrunA17_Chr4g0057291 23.590 390 276 10 105 484 284 661 6.61e-32 129
MsaG004273 MtrunA17_Chr5g0396491 26.078 464 253 15 91 485 36 478 1.47e-30 124
MsaG004273 MtrunA17_Chr4g0031741 24.936 393 257 12 108 484 279 649 2.70e-29 121
MsaG004273 MtrunA17_Chr4g0031711 25.879 398 263 11 103 484 351 732 1.10e-28 120
MsaG004273 MtrunA17_Chr2g0290241 25.714 350 237 9 146 485 89 425 3.78e-28 116
MsaG004273 MtrunA17_Chr7g0245601 26.558 369 251 11 118 485 443 792 2.15e-27 116
MsaG004273 MtrunA17_Chr4g0031701 24.422 389 264 9 102 475 243 616 2.46e-27 115
MsaG004273 MtrunA17_Chr2g0328391 24.755 408 268 13 97 484 280 668 8.70e-27 114
MsaG004273 MtrunA17_Chr3g0101141 27.042 355 226 15 146 485 206 542 2.41e-26 112
MsaG004273 MtrunA17_Chr4g0031721 24.936 389 264 12 108 484 311 683 2.58e-26 112
MsaG004273 MtrunA17_Chr2g0328341 24.235 392 261 14 108 484 267 637 3.74e-26 112
MsaG004273 MtrunA17_Chr4g0038761 24.661 369 262 9 118 485 89 442 1.30e-25 109
MsaG004273 MtrunA17_Chr4g0031731 24.365 394 258 11 102 475 243 616 1.62e-25 110
MsaG004273 MtrunA17_Chr4g0076091 24.069 349 242 8 146 484 207 542 3.99e-24 105
MsaG004273 MtrunA17_Chr2g0328431 22.905 358 251 9 137 484 311 653 3.01e-23 103
MsaG004273 MtrunA17_Chr2g0328381 23.864 440 286 15 67 484 228 640 3.10e-23 103
MsaG004273 MtrunA17_Chr2g0328411 22.680 388 271 9 108 484 284 653 6.30e-23 102
MsaG004273 MtrunA17_Chr5g0445331 25.000 392 263 14 109 485 157 532 1.61e-22 100
MsaG004273 MtrunA17_Chr2g0319091 25.256 293 197 9 206 484 294 578 2.26e-22 100
MsaG004273 MtrunA17_Chr1g0183641 25.513 341 231 11 147 484 156 476 5.82e-22 98.6
MsaG004273 MtrunA17_Chr3g0085681 24.685 397 228 11 146 486 56 437 1.65e-20 94.0
MsaG004273 MtrunA17_Chr5g0447691 23.143 350 246 10 146 485 208 544 4.18e-20 93.2
MsaG004273 MtrunA17_Chr4g0038851 32.919 161 100 4 329 485 313 469 5.40e-20 92.4
MsaG004273 MtrunA17_Chr3g0125811 27.526 287 186 9 213 485 292 570 1.56e-19 91.7
MsaG004273 MtrunA17_Chr1g0159461 27.431 288 183 11 214 485 315 592 6.18e-19 89.7
MsaG004273 MtrunA17_Chr4g0039661 22.376 362 247 10 137 485 215 555 1.19e-18 89.0
MsaG004273 MtrunA17_Chr2g0328371 27.660 235 156 9 206 432 13 241 1.70e-18 85.1
MsaG004273 MtrunA17_Chr2g0328361 25.524 286 187 9 108 384 269 537 5.80e-18 87.0
MsaG004273 MtrunA17_Chr3g0114841 22.829 403 277 12 103 484 110 499 1.60e-17 85.1
MsaG004273 MtrunA17_Chr2g0328401 21.763 363 244 9 108 453 285 624 2.36e-17 85.1
MsaG004273 MtrunA17_Chr3g0085361 24.294 354 204 10 190 486 5 351 3.59e-17 82.8
MsaG004273 MtrunA17_Chr5g0401131 23.416 363 255 9 138 485 136 490 6.37e-17 83.2
MsaG004273 MtrunA17_Chr7g0236851 24.710 259 186 5 231 484 402 656 5.50e-16 80.9
MsaG004273 MtrunA17_Chr8g0383981 24.557 395 251 15 106 484 132 495 3.24e-15 78.2
MsaG004273 MtrunA17_Chr4g0012071 23.631 347 238 8 145 485 226 551 4.44e-15 77.8
MsaG004273 MtrunA17_Chr5g0424131 21.728 405 279 11 102 484 110 498 6.74e-14 73.9
MsaG004273 MtrunA17_Chr7g0230731 23.515 404 270 16 93 485 353 728 5.18e-12 68.6
MsaG004273 MtrunA17_Chr1g0200401 23.262 374 232 16 146 487 111 461 6.88e-12 67.4
MsaG004273 MtrunA17_Chr2g0329591 20.548 365 264 9 138 485 96 451 3.90e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004273 AT3G03450.1 27.068 399 259 8 99 486 169 546 9.01e-44 162
MsaG004273 AT1G66350.1 25.907 386 263 7 102 486 144 507 4.25e-43 160
MsaG004273 AT2G01570.1 25.954 393 266 8 99 486 210 582 1.07e-40 154
MsaG004273 AT5G17490.1 27.806 392 249 10 104 486 151 517 3.28e-40 152
MsaG004273 AT1G14920.1 26.768 396 259 9 99 486 158 530 1.06e-39 150
MsaG004273 AT2G29065.1 26.703 367 239 9 136 484 273 627 5.32e-35 138
MsaG004273 AT3G46600.2 26.750 400 243 14 105 485 3 371 5.40e-35 134
MsaG004273 AT3G46600.3 26.799 403 245 14 102 485 176 547 1.38e-34 136
MsaG004273 AT5G59450.1 27.250 400 246 14 108 485 222 598 1.58e-34 137
MsaG004273 AT3G46600.1 26.799 403 245 14 102 485 208 579 2.35e-34 136
MsaG004273 AT1G63100.1 24.935 385 258 10 121 484 254 628 4.47e-30 124
MsaG004273 AT1G63100.2 24.935 385 258 10 121 484 279 653 4.48e-30 124
MsaG004273 AT1G07530.1 24.505 404 262 11 101 484 384 764 9.28e-29 120
MsaG004273 AT3G54220.1 27.005 374 244 13 118 484 298 649 1.13e-28 120
MsaG004273 AT4G17230.1 25.000 396 262 12 105 485 150 525 5.78e-28 117
MsaG004273 AT4G17230.2 25.000 396 262 12 105 485 150 525 5.78e-28 117
MsaG004273 AT5G41920.1 26.221 389 266 12 100 485 30 400 8.86e-28 115
MsaG004273 AT1G50420.1 24.889 450 252 15 104 485 48 479 4.86e-27 114
MsaG004273 AT2G29060.2 25.990 404 242 14 109 484 280 654 9.07e-27 114
MsaG004273 AT2G29060.1 25.990 404 242 14 109 484 317 691 1.12e-26 114
MsaG004273 AT1G07520.2 24.586 362 234 10 145 484 184 528 2.87e-26 112
MsaG004273 AT1G07520.4 24.586 362 234 10 145 484 184 528 2.87e-26 112
MsaG004273 AT1G07520.3 24.586 362 234 10 145 484 349 693 3.06e-26 112
MsaG004273 AT1G07520.1 24.586 362 234 10 145 484 348 692 3.47e-26 112
MsaG004273 AT1G50600.3 25.496 353 234 11 146 485 190 526 2.44e-24 106
MsaG004273 AT1G50600.2 25.496 353 234 11 146 485 265 601 3.93e-24 106
MsaG004273 AT1G50600.1 25.496 353 234 11 146 485 261 597 4.10e-24 106
MsaG004273 AT2G37650.2 24.679 389 265 9 108 485 330 701 4.80e-23 103
MsaG004273 AT2G37650.1 24.679 389 265 9 108 485 342 713 4.97e-23 103
MsaG004273 AT1G55580.1 25.401 374 242 11 146 485 75 445 1.12e-22 100
MsaG004273 AT2G04890.1 24.251 367 249 11 130 485 65 413 1.30e-22 100
MsaG004273 AT5G48150.1 23.499 383 265 10 118 485 121 490 7.20e-22 99.0
MsaG004273 AT5G48150.4 23.499 383 265 10 118 485 121 490 7.20e-22 99.0
MsaG004273 AT5G48150.2 23.499 383 265 10 118 485 121 490 7.20e-22 99.0
MsaG004273 AT5G48150.3 23.499 383 265 10 118 485 121 490 7.20e-22 99.0
MsaG004273 AT4G37650.1 22.564 390 277 8 114 485 147 529 3.55e-20 94.0
MsaG004273 AT5G66770.1 22.380 353 245 10 145 485 249 584 1.29e-17 86.3
MsaG004273 AT3G50650.1 21.690 355 245 10 146 485 206 542 8.69e-16 80.5
MsaG004273 AT3G49950.1 24.749 299 199 8 206 484 115 407 1.42e-14 75.9
MsaG004273 AT4G08250.1 24.519 416 275 17 87 484 82 476 3.03e-14 75.5
MsaG004273 AT2G45160.1 21.739 368 239 10 137 485 302 639 1.35e-11 67.4
MsaG004273 AT1G21450.1 23.183 289 197 9 213 485 314 593 2.37e-11 66.6
MsaG004273 AT4G36710.1 23.229 353 236 15 146 486 157 486 2.39e-11 66.2

Find 69 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGGTAAGTGTTTAATAAT+TGG 0.167586 1:-67620505 MsaT004273.1:CDS
CATTTGATTCATCTTAATAT+TGG 0.236657 1:-67621210 MsaT004273.1:CDS
GACGGAATTGATTGATAAAA+TGG 0.247556 1:-67621346 MsaT004273.1:CDS
AATAATCTTTACATTCCTTA+TGG 0.249550 1:-67621642 MsaT004273.1:CDS
CATGCCACAGTGATGAGTTT+TGG 0.263501 1:+67621667 None:intergenic
ATTCCTTATGGAACTGTTCT+TGG 0.265945 1:-67621630 MsaT004273.1:CDS
TCGCAAACAAGGGTGAATTA+TGG 0.302490 1:+67620824 None:intergenic
AAGGCTAAGTTAGAAGAAAT+TGG 0.303167 1:-67621090 MsaT004273.1:CDS
ATGAATGAAAGTGGAAATAT+TGG 0.333082 1:-67621483 MsaT004273.1:CDS
TCCATGTTCACTTAGGACTA+TGG 0.336208 1:-67620935 MsaT004273.1:CDS
GATAAGAAACATTGTTGGTT+TGG 0.346018 1:-67620689 MsaT004273.1:CDS
ATTCTGAAGATCACAGCTAT+TGG 0.354564 1:-67621123 MsaT004273.1:CDS
AATCAAGTAATGCAATTTGC+TGG 0.354696 1:-67621276 MsaT004273.1:CDS
TTATGAGTGTAGAGTGATAA+TGG 0.355610 1:-67620731 MsaT004273.1:CDS
GAAGATATAATAACACTTGC+AGG 0.358002 1:-67621702 MsaT004273.1:CDS
ATTCACCCTTGTTTGCGAAT+AGG 0.360715 1:-67620819 MsaT004273.1:CDS
CTTGAAGTGCTTGAGAGAAA+TGG 0.363368 1:+67621436 None:intergenic
CAAGCTGAGACTGAATGAAT+TGG 0.383878 1:+67620469 None:intergenic
AGGTATAGAATGGTAGAAAC+TGG 0.390006 1:-67620607 MsaT004273.1:CDS
GGAATGTGAAGATTGATGTT+TGG 0.392726 1:-67620645 MsaT004273.1:CDS
TCAAGTACTATCATAATAAA+CGG 0.431397 1:+67620859 None:intergenic
CGGACGAGGAAAGATGAAAC+TGG 0.435732 1:-67621394 MsaT004273.1:CDS
TTTCATCTCATGAATGAAAG+TGG 0.437460 1:-67621492 MsaT004273.1:CDS
GAGAGAATCCACAGAGAAAC+CGG 0.439083 1:-67621414 MsaT004273.1:CDS
CAGTTTCATCTTTCCTCGTC+CGG 0.439195 1:+67621395 None:intergenic
CAATATTAAGATGAATCAAA+TGG 0.442889 1:+67621211 None:intergenic
AATTGCATTACTTGATTGAA+AGG 0.446453 1:+67621282 None:intergenic
ATTCATCTTAATATTGGATG+TGG 0.448243 1:-67621204 MsaT004273.1:CDS
TTTATTCTCCATGTTCACTT+AGG 0.457172 1:-67620942 MsaT004273.1:CDS
TGTTGATACTTGTATAAAAG+AGG 0.464976 1:-67620755 MsaT004273.1:CDS
GGTATCAAATTCTGATGGCT+TGG 0.468081 1:-67620914 MsaT004273.1:CDS
GTGATCTTCAGAATTTCAAC+CGG 0.468897 1:+67621132 None:intergenic
ATCAATTCCACGGCTTAAGC+AGG 0.469908 1:-67621850 MsaT004273.1:CDS
TGCTGGTGTACAAGCTATAG+TGG 0.474092 1:-67621259 MsaT004273.1:CDS
GAAGGGATAAGAAACATTGT+TGG 0.474796 1:-67620694 MsaT004273.1:CDS
TGTTCTTGGAAGCTTGTTGT+CGG 0.475836 1:-67621616 MsaT004273.1:CDS
GTTCTTTGCAAGGTATAGAA+TGG 0.484270 1:-67620617 MsaT004273.1:CDS
AAGATGAAGAAAGGAAGGTT+AGG 0.502253 1:-67620666 MsaT004273.1:CDS
TGTTTAATAATTGGATGGAA+GGG 0.503361 1:-67620496 MsaT004273.1:CDS
CAATTCATTCAGTCTCAGCT+TGG 0.509421 1:-67620468 MsaT004273.1:CDS
TTGGTTTGGAAGATGAAGAA+AGG 0.515913 1:-67620675 MsaT004273.1:CDS
GTGTTTAATAATTGGATGGA+AGG 0.523650 1:-67620497 MsaT004273.1:CDS
GTTTAATAATTGGATGGAAG+GGG 0.527241 1:-67620495 MsaT004273.1:CDS
TTTGGAAGATGAAGAAAGGA+AGG 0.529462 1:-67620671 MsaT004273.1:CDS
CTTCCAAGAACAGTTCCATA+AGG 0.531300 1:+67621627 None:intergenic
AACAAACCTATTCGCAAACA+AGG 0.532041 1:+67620813 None:intergenic
GTAAGTGTTTAATAATTGGA+TGG 0.532866 1:-67620501 MsaT004273.1:CDS
AAGCCGTGGAATTGATATCA+TGG 0.533713 1:+67621857 None:intergenic
TCAAGTGATGCTAAAGAAGA+TGG 0.542006 1:+67621813 None:intergenic
TTTGGAGAAGGTTCTTTGCA+AGG 0.543910 1:-67620627 MsaT004273.1:CDS
ATGGAAGCAATATTATCTGA+AGG 0.550756 1:-67620712 MsaT004273.1:CDS
AGTAGACCGCAAGGAAAAGC+CGG 0.553680 1:-67621151 MsaT004273.1:CDS
CTAGCAGCAGCTGAGAGAGT+AGG 0.586422 1:-67621555 MsaT004273.1:CDS
ACCATAGTCCTAAGTGAACA+TGG 0.589256 1:+67620934 None:intergenic
TTCCTCGTCCGGTTTCTCTG+TGG 0.589920 1:+67621406 None:intergenic
TGGAAGCAATATTATCTGAA+GGG 0.593391 1:-67620711 MsaT004273.1:CDS
TGAAGATTGATGTTTGGAGA+AGG 0.596614 1:-67620639 MsaT004273.1:CDS
TGGCTTGGAGAATTTGATGA+AGG 0.603211 1:-67620899 MsaT004273.1:CDS
ACTATGGTATCAAATTCTGA+TGG 0.608580 1:-67620919 MsaT004273.1:CDS
AAATGAGAGAAACAAGGAGA+CGG 0.612044 1:-67621364 MsaT004273.1:CDS
ATCCACAGAGAAACCGGACG+AGG 0.613864 1:-67621408 MsaT004273.1:CDS
AAGCCATGATATCAATTCCA+CGG 0.616214 1:-67621860 MsaT004273.1:CDS
ATTTGCACCTGCTTAAGCCG+TGG 0.626082 1:+67621843 None:intergenic
GCAAGCATTAGTAGACCGCA+AGG 0.627501 1:-67621160 MsaT004273.1:CDS
ACAAACCTATTCGCAAACAA+GGG 0.673185 1:+67620814 None:intergenic
TAGATCAAATGAGAGAAACA+AGG 0.680410 1:-67621370 MsaT004273.1:CDS
GATGCTAAAGAAGATGGTGG+TGG 0.682167 1:+67621819 None:intergenic
AGTGATGCTAAAGAAGATGG+TGG 0.725977 1:+67621816 None:intergenic
ATATCCAAAACTCATCACTG+TGG 0.776374 1:-67621671 MsaT004273.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 67620456 67621919 67620456 ID=MsaG004273
Chr1 mRNA 67620456 67621919 67620456 ID=MsaT004273.1;Parent=MsaG004273
Chr1 exon 67620456 67621919 67620456 ID=MsaT004273.1.exon1;Parent=MsaT004273.1
Chr1 CDS 67620456 67621919 67620456 ID=cds.MsaT004273.1;Parent=MsaT004273.1
Gene Sequence

>MsaT004273.1

ATGGAGAAGTTACTACAAGATCTAGAGCAAGAAAATCAAGCCATGATATCAATTCCACGGCTTAAGCAGGTGCAAATGCCACCACCATCTTCTTTAGCATCACTTGAGCTATTGAAAAATTATGGAAGCAAGTTCAATAAGCAAAAAAGCAAAAGCAATGTTGAAACTTGTGTAAGTCCACAAAAGTTGTCAACTGAAGATATAATAACACTTGCAGGAACGAAGTATATCCAAAACTCATCACTGTGGCATGATAATAATCTTTACATTCCTTATGGAACTGTTCTTGGAAGCTTGTTGTCGGACGAAGAAAATAAACAAGTTGAACTAGCTCAGTTTGTTCTAGCAGCAGCTGAGAGAGTAGGTTGTCAACAATTTGAACGTGCAAACATGTTACTTTCACATTTTCATCTCATGAATGAAAGTGGAAATATTGGAAGCACAGTTCAGAGACTTCTTTTCCATTTCTCTCAAGCACTTCAAGAGAGAATCCACAGAGAAACCGGACGAGGAAAGATGAAACTGGATAGATCAAATGAGAGAAACAAGGAGACGGAATTGATTGATAAAATGGAATTAGATACTAACATAGTAGTTAAATGTCATCAAAAAATTCCTTTCAATCAAGTAATGCAATTTGCTGGTGTACAAGCTATAGTGGAACATGTTGCATCACAAACAAAAATCCATTTGATTCATCTTAATATTGGATGTGGAGTGATGAGTACATGTTTCATGCAAGCATTAGTAGACCGCAAGGAAAAGCCGGTTGAAATTCTGAAGATCACAGCTATTGGATTTTCTAACAAGGCTAAGTTAGAAGAAATTGGCAAAAGTTTAATGAGTTTTGCTGAATCCTTGAACATACCCTTTTTATATAACATAGTTTTTGTTGAAGATGCTATGGAGATTAAGTTAGATCAATTTGAAATTGAATATGATGAAGCTGTTGCTATTTATTCTCCATGTTCACTTAGGACTATGGTATCAAATTCTGATGGCTTGGAGAATTTGATGAAGGTGATAAGAAAAATGAAACCGTTTATTATGATAGTACTTGAACTTGAAGCAAACCATAATTCACCCTTGTTTGCGAATAGGTTTGTTGAAGCATTGTTCTTTTACTCAGCATTTTTTGACTGTGTTGATACTTGTATAAAAGAGGATTATGAGTGTAGAGTGATAATGGAAGCAATATTATCTGAAGGGATAAGAAACATTGTTGGTTTGGAAGATGAAGAAAGGAAGGTTAGGAATGTGAAGATTGATGTTTGGAGAAGGTTCTTTGCAAGGTATAGAATGGTAGAAACTGGATTCAGTGAGTCTTCAATTTATCAAGCTAATTTAGTTACTAAAAAGTTTGACTGTGGGAAGTTTTGTACTATAGACAAAAATGGTAAGTGTTTAATAATTGGATGGAAGGGGACTCCAATTCATTCAGTCTCAGCTTGGAAGTTTCTTTGA

Protein sequence

>MsaT004273.1

MEKLLQDLEQENQAMISIPRLKQVQMPPPSSLASLELLKNYGSKFNKQKSKSNVETCVSPQKLSTEDIITLAGTKYIQNSSLWHDNNLYIPYGTVLGSLLSDEENKQVELAQFVLAAAERVGCQQFERANMLLSHFHLMNESGNIGSTVQRLLFHFSQALQERIHRETGRGKMKLDRSNERNKETELIDKMELDTNIVVKCHQKIPFNQVMQFAGVQAIVEHVASQTKIHLIHLNIGCGVMSTCFMQALVDRKEKPVEILKITAIGFSNKAKLEEIGKSLMSFAESLNIPFLYNIVFVEDAMEIKLDQFEIEYDEAVAIYSPCSLRTMVSNSDGLENLMKVIRKMKPFIMIVLELEANHNSPLFANRFVEALFFYSAFFDCVDTCIKEDYECRVIMEAILSEGIRNIVGLEDEERKVRNVKIDVWRRFFARYRMVETGFSESSIYQANLVTKKFDCGKFCTIDKNGKCLIIGWKGTPIHSVSAWKFL*