AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025415

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025415 MtrunA17_Chr5g0401421 94.643 448 24 0 1 448 1 448 0.0 866
MsaG025415 MtrunA17_Chr4g0053901 67.249 458 128 8 1 448 25 470 0.0 592
MsaG025415 MtrunA17_Chr2g0323111 48.780 205 91 2 244 448 118 308 3.73e-63 207
MsaG025415 MtrunA17_Chr2g0323111 40.541 111 51 3 28 133 45 145 1.12e-14 74.7
MsaG025415 MtrunA17_Chr5g0401131 27.446 419 257 11 35 447 114 491 9.62e-44 160
MsaG025415 MtrunA17_Chr1g0159461 26.506 415 257 6 33 445 223 591 1.25e-39 150
MsaG025415 MtrunA17_Chr3g0125811 27.014 422 246 8 33 445 201 569 2.85e-39 149
MsaG025415 MtrunA17_Chr2g0329591 27.189 434 242 13 34 447 73 452 1.02e-36 140
MsaG025415 MtrunA17_Chr5g0445331 24.429 438 265 10 21 445 147 531 4.08e-34 134
MsaG025415 MtrunA17_Chr3g0101141 24.762 420 260 9 32 445 172 541 6.19e-34 133
MsaG025415 MtrunA17_Chr2g0319091 26.005 423 251 10 32 445 209 578 7.99e-34 133
MsaG025415 MtrunA17_Chr2g0306641 26.492 419 245 12 34 445 124 486 8.04e-34 132
MsaG025415 MtrunA17_Chr5g0447691 25.708 424 251 10 32 445 174 543 6.72e-33 130
MsaG025415 MtrunA17_Chr4g0076091 27.692 325 193 6 127 446 256 543 6.25e-32 127
MsaG025415 MtrunA17_Chr4g0031711 24.350 423 269 12 32 448 358 735 7.40e-31 125
MsaG025415 MtrunA17_Chr8g0357601 28.308 325 182 11 128 445 271 551 1.53e-30 124
MsaG025415 MtrunA17_Chr8g0344101 26.415 424 256 12 33 445 221 599 6.65e-30 122
MsaG025415 MtrunA17_Chr3g0110971 25.701 428 239 10 36 445 220 586 2.14e-29 120
MsaG025415 MtrunA17_Chr2g0290241 26.608 342 211 7 110 445 117 424 3.09e-29 118
MsaG025415 MtrunA17_Chr8g0376381 25.962 416 238 13 36 445 170 521 6.47e-29 119
MsaG025415 MtrunA17_Chr7g0224271 26.540 422 250 14 35 445 300 672 2.64e-28 118
MsaG025415 MtrunA17_Chr2g0328391 23.515 421 273 11 32 448 296 671 7.88e-28 116
MsaG025415 MtrunA17_Chr4g0031731 23.515 421 270 13 32 446 251 625 1.88e-27 115
MsaG025415 MtrunA17_Chr4g0031701 23.877 423 266 15 32 446 251 625 8.12e-27 113
MsaG025415 MtrunA17_Chr4g0057891 26.415 424 248 14 34 445 148 519 2.18e-26 111
MsaG025415 MtrunA17_Chr4g0031721 24.882 422 264 14 32 448 313 686 4.36e-24 105
MsaG025415 MtrunA17_Chr4g0031741 24.582 419 261 15 35 448 284 652 6.05e-24 104
MsaG025415 MtrunA17_Chr3g0085681 23.973 438 277 12 36 445 26 435 1.88e-23 102
MsaG025415 MtrunA17_Chr4g0057291 23.095 420 268 12 35 447 292 663 3.13e-23 102
MsaG025415 MtrunA17_Chr7g0238891 22.642 424 271 11 32 448 369 742 3.40e-22 99.8
MsaG025415 MtrunA17_Chr7g0236851 25.056 443 257 11 9 445 283 656 5.08e-22 99.0
MsaG025415 MtrunA17_Chr2g0328341 23.168 423 268 13 32 448 269 640 8.75e-22 98.2
MsaG025415 MtrunA17_Chr2g0328431 22.256 328 218 7 124 448 363 656 7.13e-21 95.5
MsaG025415 MtrunA17_Chr3g0085361 23.343 347 226 7 124 445 18 349 1.20e-20 92.8
MsaG025415 MtrunA17_Chr4g0038851 22.449 490 287 14 9 445 19 468 1.26e-20 94.0
MsaG025415 MtrunA17_Chr7g0245601 21.359 412 263 11 38 447 441 793 3.50e-20 93.6
MsaG025415 MtrunA17_Chr5g0396491 22.511 462 267 12 35 445 56 477 3.55e-20 92.8
MsaG025415 MtrunA17_Chr4g0039661 25.416 421 255 12 30 445 188 554 3.61e-20 93.2
MsaG025415 MtrunA17_Chr2g0328381 22.459 423 271 13 32 448 272 643 4.53e-20 93.2
MsaG025415 MtrunA17_Chr2g0328411 22.769 325 216 7 124 446 363 654 5.75e-20 92.8
MsaG025415 MtrunA17_Chr6g0468561 24.413 426 256 11 31 445 291 661 8.51e-20 92.4
MsaG025415 MtrunA17_Chr4g0038761 23.133 415 258 14 38 448 87 444 6.43e-18 85.9
MsaG025415 MtrunA17_Chr1g0183641 21.687 415 260 12 35 445 123 476 7.33e-18 85.9
MsaG025415 MtrunA17_Chr2g0328401 22.646 393 249 11 27 414 280 622 2.74e-17 84.3
MsaG025415 MtrunA17_Chr8g0383981 23.765 425 248 12 35 448 139 498 7.24e-17 82.8
MsaG025415 MtrunA17_Chr1g0200401 23.230 452 250 16 22 445 76 458 6.02e-15 76.6
MsaG025415 MtrunA17_Chr7g0270031 23.529 323 198 9 129 445 274 553 2.14e-14 75.5
MsaG025415 MtrunA17_Chr2g0328371 23.221 267 162 8 129 391 13 240 1.88e-13 70.1
MsaG025415 MtrunA17_Chr3g0114841 22.222 324 210 7 126 445 214 499 1.95e-13 72.0
MsaG025415 MtrunA17_Chr5g0424131 23.641 423 266 17 35 445 121 498 1.24e-12 69.7
MsaG025415 MtrunA17_Chr2g0328361 20.428 421 257 13 32 448 271 617 1.02e-11 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025415 AT3G49950.1 56.751 437 149 9 14 447 10 409 1.16e-167 478
MsaG025415 AT5G67411.1 55.066 227 75 4 163 387 1 202 1.48e-75 235
MsaG025415 AT4G37650.1 28.188 447 271 12 14 448 123 531 4.45e-42 156
MsaG025415 AT2G04890.1 25.481 416 255 7 32 445 50 412 3.20e-34 132
MsaG025415 AT1G21450.1 25.768 423 251 9 33 445 223 592 2.90e-33 132
MsaG025415 AT5G48150.1 27.229 415 249 8 36 445 123 489 6.69e-33 130
MsaG025415 AT5G48150.4 27.229 415 249 8 36 445 123 489 6.69e-33 130
MsaG025415 AT5G48150.2 27.229 415 249 8 36 445 123 489 6.69e-33 130
MsaG025415 AT5G48150.3 27.229 415 249 8 36 445 123 489 6.69e-33 130
MsaG025415 AT5G17490.1 26.087 414 247 6 34 445 159 515 1.92e-32 129
MsaG025415 AT1G50600.3 25.298 419 259 10 32 445 156 525 5.92e-32 128
MsaG025415 AT1G50600.2 25.298 419 259 10 32 445 231 600 1.05e-31 128
MsaG025415 AT1G50600.1 25.298 419 259 10 32 445 227 596 1.11e-31 128
MsaG025415 AT3G03450.1 26.214 412 251 8 36 445 184 544 1.54e-31 127
MsaG025415 AT4G17230.1 24.648 426 257 9 32 447 155 526 2.10e-29 120
MsaG025415 AT4G17230.2 24.648 426 257 9 32 447 155 526 2.10e-29 120
MsaG025415 AT2G29065.1 25.776 419 266 12 35 448 252 630 1.63e-28 119
MsaG025415 AT3G13840.1 26.415 424 241 14 33 445 146 509 1.77e-26 112
MsaG025415 AT1G14920.1 24.337 415 250 12 36 445 173 528 2.05e-25 109
MsaG025415 AT2G01570.1 23.971 413 254 12 36 445 225 580 1.16e-24 107
MsaG025415 AT5G52510.1 23.041 434 257 11 31 445 264 639 1.45e-24 107
MsaG025415 AT1G50420.1 24.123 456 267 14 35 445 57 478 1.07e-23 103
MsaG025415 AT2G37650.2 23.040 421 269 14 32 447 332 702 1.18e-22 101
MsaG025415 AT2G37650.1 23.040 421 269 14 32 447 344 714 1.22e-22 101
MsaG025415 AT1G66350.1 23.245 413 251 8 36 445 156 505 2.80e-22 99.8
MsaG025415 AT3G46600.2 22.695 423 271 9 32 448 1 373 2.12e-21 95.9
MsaG025415 AT5G59450.1 23.165 436 281 10 20 448 212 600 6.70e-21 95.9
MsaG025415 AT3G46600.1 22.931 423 270 9 32 448 209 581 9.61e-21 95.5
MsaG025415 AT3G46600.3 22.770 426 267 9 32 448 177 549 1.24e-20 95.1
MsaG025415 AT1G07520.2 24.194 434 253 17 35 448 154 531 1.69e-20 94.4
MsaG025415 AT1G07520.4 24.194 434 253 17 35 448 154 531 1.69e-20 94.4
MsaG025415 AT1G07520.1 24.194 434 253 17 35 448 318 695 1.98e-20 94.7
MsaG025415 AT1G07520.3 24.194 434 253 17 35 448 319 696 2.12e-20 94.7
MsaG025415 AT1G55580.1 23.462 439 276 12 32 445 41 444 2.54e-20 93.6
MsaG025415 AT1G63100.1 23.653 334 199 9 127 445 336 628 8.84e-19 89.4
MsaG025415 AT1G63100.2 23.653 334 199 9 127 445 361 653 9.41e-19 89.4
MsaG025415 AT1G07530.1 20.665 421 284 9 32 448 393 767 1.79e-18 88.6
MsaG025415 AT2G29060.1 22.642 424 272 12 32 447 318 693 2.54e-18 88.2
MsaG025415 AT2G29060.2 22.642 424 272 12 32 447 281 656 2.68e-18 88.2
MsaG025415 AT5G66770.1 26.370 292 176 8 126 414 294 549 3.47e-17 84.3
MsaG025415 AT5G41920.1 22.542 417 257 14 35 445 43 399 3.37e-16 80.5
MsaG025415 AT3G50650.1 24.706 340 190 9 126 445 248 541 5.40e-13 71.2

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATCTTTCTTACGACGAATT+AGG 0.219981 5:+8086602 MsaT025415.1:CDS
CGACGAATTAGGTTCAAAAT+TGG 0.230348 5:+8086613 MsaT025415.1:CDS
AATCCGCGTTTAATTATCTT+TGG 0.234805 5:+8086981 MsaT025415.1:CDS
GCAGCTGTTAGCTTGATTAA+AGG 0.266223 5:-8086524 None:intergenic
TTTCAGCGAGGATTCGGTTT+TGG 0.288358 5:+8087189 MsaT025415.1:CDS
TAAAACAAGAAACGTGATTA+TGG 0.317994 5:+8086646 MsaT025415.1:CDS
AAGTGTAGTAGAGGGTTATT+AGG 0.328746 5:-8086041 None:intergenic
ATGAGCTTCTTGTGCTTACT+TGG 0.341746 5:+8087266 MsaT025415.1:CDS
AATGTAAATAGAGTTTCTTC+AGG 0.361286 5:-8086803 None:intergenic
AGATTTAACATCAAGTAGTT+TGG 0.367518 5:+8086946 MsaT025415.1:CDS
AGATCAAGCATTGGTGGAAC+TGG 0.372508 5:-8086584 None:intergenic
GCATTGGTGGAACTGGAATA+TGG 0.373190 5:-8086577 None:intergenic
CACTAGCACAACAAATCCTT+TGG 0.378101 5:+8086132 MsaT025415.1:CDS
GCTTCCTGCTAGGCATTGAT+TGG 0.411451 5:-8086189 None:intergenic
TTAACACCTTGGCATCGTTT+CGG 0.442385 5:+8086365 MsaT025415.1:CDS
TCCACCAAGACGACTATTGT+TGG 0.444785 5:-8086914 None:intergenic
TCTCATTCGTTGCTCCCACT+TGG 0.447629 5:-8087143 None:intergenic
ATGATAGTTATAACTATTTG+CGG 0.450034 5:-8086282 None:intergenic
AGTTTGTTTCAGCGAGGATT+CGG 0.451092 5:+8087183 MsaT025415.1:CDS
GAACAAGGACTAATAACTAC+AGG 0.460908 5:-8086005 None:intergenic
TAATAAATCTCATGAAGCAT+TGG 0.465324 5:+8086748 MsaT025415.1:CDS
CTGAGGGTGTTGTGTTGTTA+AGG 0.465694 5:-8086157 None:intergenic
ATGTTATCTTTGCTTCTGCT+TGG 0.471769 5:+8087299 MsaT025415.1:CDS
TAGTAGAGGGTTATTAGGTG+TGG 0.478477 5:-8086036 None:intergenic
GGTATGAAGCTGAAATTTGT+TGG 0.481427 5:+8087059 MsaT025415.1:CDS
GCAATTCTAGAAGCTACTAA+AGG 0.483791 5:+8086407 MsaT025415.1:CDS
GAGTAACTGCTCCATGCAAT+TGG 0.500306 5:-8086072 None:intergenic
AGAAAACTCGTGTGTTTGTA+TGG 0.500579 5:-8086315 None:intergenic
CTTCTTGTGCTTACTTGGAA+AGG 0.503343 5:+8087271 MsaT025415.1:CDS
TTCTGGAATATTGCAACTAC+AGG 0.513561 5:-8086246 None:intergenic
TGATGAACATGCAGCTGGAT+GGG 0.514109 5:+8087228 MsaT025415.1:CDS
ATTGTTGCTTTCAATTGCAC+TGG 0.516587 5:-8086105 None:intergenic
GAGAATGTGATAGCATATGA+AGG 0.519545 5:+8087088 MsaT025415.1:CDS
AGATCCAACAATAGTCGTCT+TGG 0.519549 5:+8086910 MsaT025415.1:CDS
TCCAACAATAGTCGTCTTGG+TGG 0.526010 5:+8086913 MsaT025415.1:CDS
GTCTCCAATCAATGCCTAGC+AGG 0.535328 5:+8086185 MsaT025415.1:CDS
AATGTGTCCACCGTGTCAAA+CGG 0.536257 5:-8087007 None:intergenic
ACTAGCACAACAAATCCTTT+GGG 0.538819 5:+8086133 MsaT025415.1:CDS
TTGATTGGAGACGTCGTCTG+AGG 0.544443 5:-8086174 None:intergenic
CTTCAACAACGCCAATTGCA+TGG 0.549170 5:+8086061 MsaT025415.1:CDS
AGTAGAGGGTTATTAGGTGT+GGG 0.549560 5:-8086035 None:intergenic
ATGCTTGATGAACATGCAGC+TGG 0.552523 5:+8087223 MsaT025415.1:CDS
CGTTGTTGAAGTGTAGTAGA+GGG 0.553431 5:-8086049 None:intergenic
GTGGGAGCAACGAATGAGAA+AGG 0.554477 5:+8087147 MsaT025415.1:CDS
GATGAACATGCAGCTGGATG+GGG 0.559473 5:+8087229 MsaT025415.1:CDS
TGAAGCTGAAATTTGTTGGA+AGG 0.560306 5:+8087063 MsaT025415.1:CDS
GTTTCTTCAACTTATTCAGA+CGG 0.564374 5:+8086680 MsaT025415.1:CDS
TAAGAAAGATCAAGCATTGG+TGG 0.570387 5:-8086590 None:intergenic
CTCGAATGAAGCTTCCTGCT+AGG 0.572012 5:-8086199 None:intergenic
TTGATGAACATGCAGCTGGA+TGG 0.579446 5:+8087227 MsaT025415.1:CDS
TTGTGTTGTTAAGGACCCAA+AGG 0.585571 5:-8086148 None:intergenic
GCAATGGCGTCGATTAGTGT+AGG 0.586251 5:-8086482 None:intergenic
TGATTGGAGACGTCGTCTGA+GGG 0.587007 5:-8086173 None:intergenic
TGCCTTTGTTTACTCCCTCG+TGG 0.588128 5:-8087034 None:intergenic
GCGTTGTTGAAGTGTAGTAG+AGG 0.604252 5:-8086050 None:intergenic
GCTGTTAGCTTGATTAAAGG+AGG 0.610301 5:-8086521 None:intergenic
AACCTCATGATGATTTGCAA+TGG 0.610435 5:-8086498 None:intergenic
CAGCTGCAGTTAATAACTGT+AGG 0.611302 5:+8086540 MsaT025415.1:CDS
AATGTTGCACTTGCACTCGT+AGG 0.611711 5:-8086724 None:intergenic
CGCCATTGCAAATCATCATG+AGG 0.616800 5:+8086496 MsaT025415.1:CDS
TTGGATACCGTTTGACACGG+TGG 0.625357 5:+8087000 MsaT025415.1:CDS
TCTTTGGATACCGTTTGACA+CGG 0.625561 5:+8086997 MsaT025415.1:CDS
AGAATGTGATAGCATATGAA+GGG 0.625664 5:+8087089 MsaT025415.1:CDS
GAGGGAGTAAACAAAGGCAG+TGG 0.640189 5:+8087038 MsaT025415.1:CDS
GGTGTGGGAAATTCTGAACA+AGG 0.649547 5:-8086020 None:intergenic
TCGTAAGAAAGATCAAGCAT+TGG 0.656089 5:-8086593 None:intergenic
GAGTCGAGTCTAAAACCAAG+TGG 0.658958 5:+8087128 MsaT025415.1:CDS
AACAAGGACTAATAACTACA+GGG 0.659957 5:-8086004 None:intergenic
AGTCGAGTCTAAAACCAAGT+GGG 0.662079 5:+8087129 MsaT025415.1:CDS
TCAAGGAGTTTGTTTCAGCG+AGG 0.668448 5:+8087177 MsaT025415.1:CDS
TACCACGAGGGAGTAAACAA+AGG 0.668759 5:+8087032 MsaT025415.1:CDS
GTGTAACCGAAACGATGCCA+AGG 0.704462 5:-8086371 None:intergenic
TATCCAAAGATAATTAAACG+CGG 0.789557 5:-8086984 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 8085987 8087333 8085987 ID=MsaG025415
Chr5 mRNA 8085987 8087333 8085987 ID=MsaT025415.1;Parent=MsaG025415
Chr5 exon 8085987 8087333 8085987 ID=MsaT025415.1.exon1;Parent=MsaT025415.1
Chr5 CDS 8085987 8087333 8085987 ID=cds.MsaT025415.1;Parent=MsaT025415.1
Gene Sequence

>MsaT025415.1

ATGAACAAAAATCAAATCCCTGTAGTTATTAGTCCTTGTTCAGAATTTCCCACACCTAATAACCCTCTACTACACTTCAACAACGCCAATTGCATGGAGCAGTTACTCGTTCACTGTGCCAGTGCAATTGAAAGCAACAATGCAACACTAGCACAACAAATCCTTTGGGTCCTTAACAACACAACACCCTCAGACGACGTCTCCAATCAATGCCTAGCAGGAAGCTTCATTCGAGCTCTTACAACGCGTGCAAGAAGATCCTGTAGTTGCAATATTCCAGAAGCAGTTACAAAAACCGCAAATAGTTATAACTATCATCACAATCTCGCCATACAAACACACGAGTTTTCTGTCATTGAGTTAGCAAATTTTATTGATTTAACACCTTGGCATCGTTTCGGTTACACAGCAGCTAATTCTGCAATTCTAGAAGCTACTAAAGGATTTTCAGTTATTCACATTGTTGATTTGAGTTTAACACACTGCATGCAGATTCCTACACTAATCGACGCCATTGCAAATCATCATGAGGTTCCTCCTTTAATCAAGCTAACAGCTGCAGTTAATAACTGTAGGAATAAGAATATTAACCATATTCCAGTTCCACCAATGCTTGATCTTTCTTACGACGAATTAGGTTCAAAATTGGTTAATTTTGCTAAAACAAGAAACGTGATTATGGAATTCAAAGCTGTTTCTTCAACTTATTCAGACGGATTTGCTTCGTTGATTGAACACCTACGAGTGCAAGTGCAACATTTTAATAAATCTCATGAAGCATTGGTTATAAACTGTCACATGATGCTTCATTATATTCCTGAAGAAACTCTATTTACATTTAATGATACAAATTCAAATTTGAATTTGAATTTAAACTCTTGTTCATCGCTGCGCTCGATGTTTTTAGAAGCTGTACGGAGTTTAGATCCAACAATAGTCGTCTTGGTGGATGAAGATGCAGATTTAACATCAAGTAGTTTGGTTAGTAGACTAAAATCCGCGTTTAATTATCTTTGGATACCGTTTGACACGGTGGACACATTTTTACCACGAGGGAGTAAACAAAGGCAGTGGTATGAAGCTGAAATTTGTTGGAAGGTTGAGAATGTGATAGCATATGAAGGGATTCAGAGAGTTGAGAGAGTCGAGTCTAAAACCAAGTGGGAGCAACGAATGAGAAAGGCACGTTTTCAAGGAGTTTGTTTCAGCGAGGATTCGGTTTTGGAGGTTAAGGGTATGCTTGATGAACATGCAGCTGGATGGGGATTGAAGAAAGAAGATGAGCTTCTTGTGCTTACTTGGAAAGGACATAATGTTATCTTTGCTTCTGCTTGGTTACCTTCTTGA
Protein sequence

>MsaT025415.1

MNKNQIPVVISPCSEFPTPNNPLLHFNNANCMEQLLVHCASAIESNNATLAQQILWVLNNTTPSDDVSNQCLAGSFIRALTTRARRSCSCNIPEAVTKTANSYNYHHNLAIQTHEFSVIELANFIDLTPWHRFGYTAANSAILEATKGFSVIHIVDLSLTHCMQIPTLIDAIANHHEVPPLIKLTAAVNNCRNKNINHIPVPPMLDLSYDELGSKLVNFAKTRNVIMEFKAVSSTYSDGFASLIEHLRVQVQHFNKSHEALVINCHMMLHYIPEETLFTFNDTNSNLNLNLNSCSSLRSMFLEAVRSLDPTIVVLVDEDADLTSSSLVSRLKSAFNYLWIPFDTVDTFLPRGSKQRQWYEAEICWKVENVIAYEGIQRVERVESKTKWEQRMRKARFQGVCFSEDSVLEVKGMLDEHAAGWGLKKEDELLVLTWKGHNVIFASAWLPS*