AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010872

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010872 MtrunA17_Chr2g0329981 93.684 475 6 1 1 451 1 475 0.0 902
MsaG010872 MtrunA17_Chr8g0342821 78.151 476 77 5 1 451 1 474 0.0 744
MsaG010872 MtrunA17_Chr4g0071031 69.811 477 95 6 1 451 1 454 0.0 631
MsaG010872 MtrunA17_Chr2g0299661 64.681 470 138 4 1 446 1 466 0.0 608
MsaG010872 MtrunA17_Chr1g0183631 55.579 475 157 10 1 444 1 452 3.25e-170 486
MsaG010872 MtrunA17_Chr7g0261501 67.335 349 88 2 1 325 1 347 4.33e-170 486
MsaG010872 MtrunA17_Chr1g0166821 67.898 352 79 4 1 325 2 346 3.60e-168 481
MsaG010872 MtrunA17_Chr1g0187571 63.684 380 107 4 1 356 2 374 1.40e-164 472
MsaG010872 MtrunA17_Chr6g0486611 58.234 419 135 9 1 387 1 411 2.47e-158 454
MsaG010872 MtrunA17_Chr8g0390211 58.376 394 129 6 1 368 1 385 1.37e-155 447
MsaG010872 MtrunA17_Chr3g0140071 61.696 342 100 4 1 318 1 335 7.83e-146 422
MsaG010872 MtrunA17_Chr1g0146151 61.468 327 101 2 1 303 1 326 2.32e-144 419
MsaG010872 MtrunA17_Chr1g0167261 63.240 321 90 4 1 293 2 322 2.85e-143 413
MsaG010872 MtrunA17_Chr1g0146301 36.364 275 136 5 9 249 124 393 1.25e-48 176
MsaG010872 MtrunA17_Chr3g0140431 35.897 273 140 4 9 249 38 307 3.24e-48 174
MsaG010872 MtrunA17_Chr7g0214531 34.409 279 142 4 9 249 37 312 4.66e-47 171
MsaG010872 MtrunA17_Chr1g0213321 35.252 278 144 5 9 253 119 393 1.38e-46 171
MsaG010872 MtrunA17_Chr7g0253211 34.375 288 147 5 4 252 317 601 1.22e-44 167
MsaG010872 MtrunA17_Chr8g0340491 34.397 282 139 7 9 249 128 404 5.06e-43 160
MsaG010872 MtrunA17_Chr4g0072831 29.319 191 110 6 1 189 2 169 1.49e-12 68.6
MsaG010872 MtrunA17_Chr3g0140631 27.053 207 126 6 5 191 33 234 5.81e-11 63.5
MsaG010872 MtrunA17_Chr3g0107011 25.764 229 113 8 1 190 5 215 6.28e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010872 AT1G72710.1 72.650 468 101 4 1 444 1 465 0.0 671
MsaG010872 AT4G26100.1 66.030 471 111 6 1 447 1 446 0.0 606
MsaG010872 AT5G57015.1 64.286 476 103 7 1 451 1 434 0.0 595
MsaG010872 AT2G19470.1 74.924 327 58 1 1 303 1 327 0.0 521
MsaG010872 AT3G23340.1 66.856 353 82 4 1 325 1 346 1.91e-167 478
MsaG010872 AT4G14340.1 60.337 416 118 8 1 387 7 404 2.54e-166 476
MsaG010872 AT1G03930.1 73.737 297 54 1 1 273 1 297 6.56e-166 476
MsaG010872 AT5G44100.1 74.074 297 53 1 1 273 1 297 1.16e-165 475
MsaG010872 AT5G44100.2 74.074 297 53 1 1 273 1 297 1.16e-165 475
MsaG010872 AT4G14340.2 68.168 333 73 4 1 306 7 333 4.64e-162 462
MsaG010872 AT5G43320.1 59.179 414 130 5 1 382 1 407 3.96e-161 464
MsaG010872 AT4G28540.1 54.902 459 164 7 1 425 5 454 5.30e-161 463
MsaG010872 AT1G04440.1 63.714 350 102 2 1 325 1 350 1.33e-159 459
MsaG010872 AT5G43320.2 66.768 328 83 2 1 304 1 326 2.31e-156 447
MsaG010872 AT5G43320.3 66.768 328 83 2 1 304 1 326 2.31e-156 447
MsaG010872 AT3G23340.2 66.066 333 78 4 21 325 7 332 1.97e-154 445
MsaG010872 AT4G28860.2 62.606 353 102 6 1 328 1 348 7.75e-154 441
MsaG010872 AT4G28880.3 65.823 316 84 2 1 292 1 316 1.60e-153 442
MsaG010872 AT4G28880.2 65.823 316 84 2 1 292 1 316 1.60e-153 442
MsaG010872 AT4G28880.1 65.823 316 84 2 1 292 1 316 1.60e-153 442
MsaG010872 AT4G28880.4 65.823 316 84 2 1 292 1 316 1.60e-153 442
MsaG010872 AT4G28860.1 67.857 308 75 2 1 284 1 308 4.07e-153 441
MsaG010872 AT4G08800.1 66.890 299 55 2 1 281 1 273 3.93e-143 410
MsaG010872 AT2G25760.2 36.585 287 141 4 4 249 100 386 9.03e-53 188
MsaG010872 AT2G25760.1 35.889 287 140 5 4 249 100 383 1.18e-49 179
MsaG010872 AT3G03940.1 34.602 289 147 5 4 253 133 418 8.41e-46 169
MsaG010872 AT3G13670.1 34.276 283 145 6 9 253 137 416 9.44e-46 169
MsaG010872 AT5G18190.2 33.910 289 149 5 4 253 123 408 7.29e-45 166
MsaG010872 AT5G18190.1 33.910 289 149 5 4 253 123 408 7.29e-45 166
MsaG010872 AT5G21326.1 26.316 228 112 8 1 190 6 215 1.24e-11 66.6
MsaG010872 AT4G32830.1 27.451 204 125 6 9 193 31 230 1.26e-11 65.9
MsaG010872 AT4G24400.1 26.971 241 119 8 1 203 1 222 9.88e-11 63.9

Find 100 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGGTGCTGGGCCAAGTTC+TGG 0.217410 2:-78726801 MsaT010872.1:CDS
TGTTCTTGTAATGGATTTAC+TGG 0.238900 2:-78729675 MsaT010872.1:CDS
ATATTGCAGGGTTCTGGTGC+TGG 0.265600 2:-78726813 MsaT010872.1:intron
CCTTCTCGTCATTGAAATTC+AGG 0.271965 2:+78725526 None:intergenic
TTCCGTCTTGGTCGCAAAAT+TGG 0.279587 2:-78730875 MsaT010872.1:CDS
AGTGGCATATTGCAGGGTTC+TGG 0.307259 2:-78726819 MsaT010872.1:intron
GTGAGATGGTTTGGCGTAGA+AGG 0.320994 2:-78729707 MsaT010872.1:CDS
TGTCTAGTTCTAATTTCTTC+CGG 0.335964 2:-78725788 MsaT010872.1:CDS
AACCCTCTCTTCCTCTTGCC+AGG 0.341730 2:-78725695 MsaT010872.1:CDS
CGCCAAACCATCTCACATTC+GGG 0.397128 2:+78729714 None:intergenic
AAGTTTCCATCATTTACAAT+AGG 0.399390 2:+78726441 None:intergenic
ATGAATACACATCTTGGAAT+TGG 0.405893 2:-78727663 MsaT010872.1:intron
AATCGAAGACATAATCAAAC+TGG 0.405895 2:+78726964 None:intergenic
CTTGCCAGGGATGGTAGTCC+TGG 0.411315 2:-78725681 MsaT010872.1:CDS
AGATTGCTGATACTTCAAAA+TGG 0.414687 2:+78726938 None:intergenic
AGACAACTTCCTCATGGGTC+TGG 0.422985 2:-78729433 MsaT010872.1:CDS
CACAAAGCAACAACATCTTC+TGG 0.430594 2:-78725603 MsaT010872.1:CDS
TATTGCAGGGTTCTGGTGCT+GGG 0.431101 2:-78726812 MsaT010872.1:intron
ACGCCAAACCATCTCACATT+CGG 0.433060 2:+78729713 None:intergenic
TTCTGTTTAGGTGGGGAAGA+TGG 0.440368 2:-78726516 MsaT010872.1:intron
AGAGTACAATGTTCTTGTAA+TGG 0.440882 2:-78729684 MsaT010872.1:CDS
CAGATTATGCATATCTGAAA+AGG 0.441444 2:-78727147 MsaT010872.1:CDS
CTGAATAAATCCTCGAGACT+TGG 0.445414 2:+78729650 None:intergenic
TTTCTACAGCCTTCCATGGC+AGG 0.446289 2:-78727405 MsaT010872.1:intron
GAAAGTTTCTACTTCTATTG+AGG 0.449245 2:-78727333 MsaT010872.1:intron
GCTAGTATGAATACACATCT+TGG 0.455950 2:-78727669 MsaT010872.1:CDS
AAATGGATCTAAAGAAGTTA+TGG 0.456366 2:-78726385 MsaT010872.1:intron
TCTGGACCTATTGTAAATGA+TGG 0.460186 2:-78726447 MsaT010872.1:CDS
AGTTTGATTATGTCTTCGAT+TGG 0.464178 2:-78726962 MsaT010872.1:CDS
ATCCCGAATGTGAGATGGTT+TGG 0.467028 2:-78729716 MsaT010872.1:CDS
AGAGAGAATAAGAACTTGAC+AGG 0.470574 2:-78727705 MsaT010872.1:CDS
AACAACTGCATCACGACTGT+TGG 0.471395 2:+78725731 None:intergenic
GATCCAATGGAACCTCGTAT+TGG 0.480777 2:-78730905 None:intergenic
CTCTCAGCACTCACAACAGC+TGG 0.493489 2:+78726771 None:intergenic
TTACCAATACGAGGTTCCAT+TGG 0.498879 2:+78730902 None:intergenic
ACCCTCTCTTCCTCTTGCCA+GGG 0.500811 2:-78725694 MsaT010872.1:CDS
GTACAACAACTGAGGATGCT+TGG 0.501916 2:+78729887 None:intergenic
GGAGCACTCCTTAAAACCTC+TGG 0.508111 2:-78725660 MsaT010872.1:CDS
GACAACTTCCTCATGGGTCT+GGG 0.511900 2:-78729432 MsaT010872.1:CDS
AGACCCATGAGGAAGTTGTC+TGG 0.513231 2:+78729435 None:intergenic
TCTCTTCCTCTTGCCAGGGA+TGG 0.513542 2:-78725690 MsaT010872.1:CDS
AAAATTGGTAGCGGATCCTT+CGG 0.514691 2:-78730860 MsaT010872.1:CDS
CCAGAGTTTCTTCTACGAGC+AGG 0.515799 2:+78726465 None:intergenic
CCATTTGAGTCACTTGGTAC+CGG 0.517246 2:+78726402 None:intergenic
TTAAACCTTCACGAATGAAA+AGG 0.521136 2:+78727113 None:intergenic
GCTGGTGGTAAGCCAGAACT+TGG 0.528434 2:+78726789 None:intergenic
TTAGATCCATTTGAGTCACT+TGG 0.530625 2:+78726396 None:intergenic
CCGGTACCAAGTGACTCAAA+TGG 0.531968 2:-78726402 MsaT010872.1:CDS
GTGAGTGCTGAGAGACCATC+AGG 0.536378 2:-78726762 MsaT010872.1:intron
AAGTTGTATAAAGTACTTCA+AGG 0.537249 2:-78729858 MsaT010872.1:CDS
TTGTGCTCCGATGATGTGAT+AGG 0.538146 2:+78725621 None:intergenic
GGGGAAGATGGTAGACATGC+TGG 0.538151 2:-78726504 MsaT010872.1:CDS
ATTGGTAACAAGTTCCGTCT+TGG 0.539261 2:-78730887 MsaT010872.1:CDS
TCTAATTTCTTCCGGCCTAG+TGG 0.549750 2:-78725780 MsaT010872.1:CDS
CCTTAAAACTGTACTCATGC+TGG 0.552041 2:-78729606 MsaT010872.1:CDS
CAAACCAGACAACTTCCTCA+TGG 0.552695 2:-78729439 MsaT010872.1:CDS
TCCATTACTGTCGGTCATTG+CGG 0.553748 2:-78727183 MsaT010872.1:CDS
TTCTACAGCCTTCCATGGCA+GGG 0.557366 2:-78727404 MsaT010872.1:intron
TGCTCCAGGACTACCATCCC+TGG 0.557499 2:+78725677 None:intergenic
TGAATTTCTTTGAGCACCAG+AGG 0.572897 2:+78725644 None:intergenic
CTTACAATGGCACGTGCAGA+AGG 0.576744 2:+78726903 None:intergenic
ACCGCAATGACCGACAGTAA+TGG 0.577382 2:+78727182 None:intergenic
AAGTACGAAGCGAATTCTGA+GGG 0.578038 2:+78727205 None:intergenic
CCATGGCAGGGATTAAAAGC+AGG 0.580774 2:-78727392 MsaT010872.1:CDS
CTTCGTACTTCCATTACTGT+CGG 0.580895 2:-78727192 MsaT010872.1:CDS
CCTGCTCGTAGAAGAAACTC+TGG 0.583504 2:-78726465 MsaT010872.1:CDS
GGTATTTCTACAGCCTTCCA+TGG 0.584276 2:-78727409 MsaT010872.1:intron
AAACCAGACAACTTCCTCAT+GGG 0.585296 2:-78729438 MsaT010872.1:CDS
GTGATTCTAAGTCGTCCCTA+CGG 0.586077 2:+78727537 None:intergenic
CTGGTATCCCGAATGTGAGA+TGG 0.591046 2:-78729721 MsaT010872.1:CDS
GTCTTGTAGATCCACTAGGC+CGG 0.591531 2:+78725769 None:intergenic
TCCTTCGGCGAGATCTATCT+CGG 0.591939 2:-78730845 MsaT010872.1:intron
ATCCCTGGCAAGAGGAAGAG+AGG 0.593199 2:+78725692 None:intergenic
GTTCTTGTAATGGATTTACT+GGG 0.597182 2:-78729674 MsaT010872.1:CDS
ACTCATGCTGGCTGATCAGA+TGG 0.600494 2:-78729594 MsaT010872.1:intron
TTTATCAGAGCAAAGCCGTA+GGG 0.600968 2:-78727552 MsaT010872.1:intron
AAATTCACCTATCACATCAT+CGG 0.605560 2:-78725628 MsaT010872.1:CDS
AATGGCACGTGCAGAAGGAG+TGG 0.609634 2:+78726908 None:intergenic
AAATATTCAGACAAATGAAG+AGG 0.611556 2:-78730717 MsaT010872.1:CDS
TGAGGGGTAGCCACGACACA+AGG 0.615164 2:+78727222 None:intergenic
AACTTCCTCATGGGTCTGGG+AGG 0.615514 2:-78729429 MsaT010872.1:CDS
CTTGGTCGCAAAATTGGTAG+CGG 0.618071 2:-78730869 MsaT010872.1:CDS
CCTGAATTTCAATGACGAGA+AGG 0.618175 2:-78725526 MsaT010872.1:CDS
GGACTACCATCCCTGGCAAG+AGG 0.621909 2:+78725684 None:intergenic
GAAGTACGAAGCGAATTCTG+AGG 0.623073 2:+78727204 None:intergenic
ATTTATCAGAGCAAAGCCGT+AGG 0.626916 2:-78727553 MsaT010872.1:intron
TCCCTGGCAAGAGGAAGAGA+GGG 0.628185 2:+78725693 None:intergenic
TCAGCACTCACAACAGCTGG+TGG 0.637376 2:+78726774 None:intergenic
CGGAACTTGTTACCAATACG+AGG 0.640695 2:+78730893 None:intergenic
AATTCAGGCTCTCAATACCT+CGG 0.640782 2:+78725541 None:intergenic
ACTCGTCTTGTAGATCCACT+AGG 0.645996 2:+78725765 None:intergenic
AGTGGATCTACAAGACGAGT+AGG 0.648511 2:-78725762 MsaT010872.1:CDS
TTTACTGGGACCAAGTCTCG+AGG 0.649748 2:-78729660 MsaT010872.1:CDS
AAGATGGTAGACATGCTGGT+TGG 0.660444 2:-78726500 MsaT010872.1:CDS
ACCGAGATAGATCTCGCCGA+AGG 0.660795 2:+78730844 None:intergenic
AGGGACGACTTAGAATCACT+TGG 0.661964 2:-78727533 MsaT010872.1:CDS
TTTGATTCGTACAACAACTG+AGG 0.675406 2:+78729879 None:intergenic
GCTCGCCTCCCAGACCCATG+AGG 0.717869 2:+78729424 None:intergenic
TTGTATAAAGTACTTCAAGG+CGG 0.746900 2:-78729855 MsaT010872.1:CDS
AGTACGAAGCGAATTCTGAG+GGG 0.755113 2:+78727206 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 78725515 78730921 78725515 ID=MsaG010872
Chr2 mRNA 78725515 78730921 78725515 ID=MsaT010872.1;Parent=MsaG010872
Chr2 exon 78725515 78725811 78725515 ID=MsaT010872.1.exon13;Parent=MsaT010872.1
Chr2 CDS 78725515 78725811 78725515 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78726386 78726528 78726386 ID=MsaT010872.1.exon12;Parent=MsaT010872.1
Chr2 CDS 78726386 78726528 78726386 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78726763 78726826 78726763 ID=MsaT010872.1.exon11;Parent=MsaT010872.1
Chr2 CDS 78726763 78726826 78726763 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78726908 78726990 78726908 ID=MsaT010872.1.exon10;Parent=MsaT010872.1
Chr2 CDS 78726908 78726990 78726908 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78727119 78727245 78727119 ID=MsaT010872.1.exon9;Parent=MsaT010872.1
Chr2 CDS 78727119 78727245 78727119 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78727334 78727418 78727334 ID=MsaT010872.1.exon8;Parent=MsaT010872.1
Chr2 CDS 78727334 78727418 78727334 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78727503 78727566 78727503 ID=MsaT010872.1.exon7;Parent=MsaT010872.1
Chr2 CDS 78727503 78727566 78727503 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78727664 78727725 78727664 ID=MsaT010872.1.exon6;Parent=MsaT010872.1
Chr2 CDS 78727664 78727725 78727664 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78729417 78729511 78729417 ID=MsaT010872.1.exon5;Parent=MsaT010872.1
Chr2 CDS 78729417 78729511 78729417 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78729595 78729743 78729595 ID=MsaT010872.1.exon4;Parent=MsaT010872.1
Chr2 CDS 78729595 78729743 78729595 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78729853 78729922 78729853 ID=MsaT010872.1.exon3;Parent=MsaT010872.1
Chr2 CDS 78729853 78729922 78729853 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78730703 78730743 78730703 ID=MsaT010872.1.exon2;Parent=MsaT010872.1
Chr2 CDS 78730703 78730743 78730703 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Chr2 exon 78730846 78730921 78730846 ID=MsaT010872.1.exon1;Parent=MsaT010872.1
Chr2 CDS 78730846 78730921 78730846 ID=cds.MsaT010872.1;Parent=MsaT010872.1
Gene Sequence

>MsaT010872.1

ATGGAACCTCGTATTGGTAACAAGTTCCGTCTTGGTCGCAAAATTGGTAGCGGATCCTTCGGCGAGATCTATCTCGGTACAAATATTCAGACAAATGAAGAGGTTGCAATTAAGCTTGAAAATATCAAAACCAAGCATCCTCAGTTGTTGTACGAATCAAAGTTGTATAAAGTACTTCAAGGCGGAACTGGTATCCCGAATGTGAGATGGTTTGGCGTAGAAGGAGAGTACAATGTTCTTGTAATGGATTTACTGGGACCAAGTCTCGAGGATTTATTCAGTTTTTGTAGTCGGAAATTGTCCCTTAAAACTGTACTCATGCTGGCTGATCAGATGATAAATCGAGTTGAATATATTCATTCCAAATCATTTTTACATAGGGACATCAAACCAGACAACTTCCTCATGGGTCTGGGAGGCGAGCTAATCAAAGAGAATAAGAACTTGACAGGAACTGCTAGATATGCTAGTATGAATACACATCTTGGAATTGAGCAAAGCCGTAGGGACGACTTAGAATCACTTGGATATGTTCTTATGTACTTTTTGAGAGGAAGCCTTCCATGGCAGGGATTAAAAGCAGGTACTAAAAAGCAGAAGTACGAGAAAATCAGTGAGAAGAAAGTTTCTACTTCTATTGAGTCCTTGTGTCGTGGCTACCCCTCAGAATTCGCTTCGTACTTCCATTACTGTCGGTCATTGCGGTTTGATGATAAACCAGATTATGCATATCTGAAAAGGCTGTTTCGCGACCTTTTCATTCGTGAAGGATTCCAGTTTGATTATGTCTTCGATTGGACCATTTTGAAGTATCAGCAATCTCAAATTGCCACTCCTTCTGCACGTGCCATTGGTTCTGGTGCTGGGCCAAGTTCTGGCTTACCACCAGCTGTTGTGAGTGCTGAGAGACCATCAGGTGGGGAAGATGGTAGACATGCTGGTTGGTCTTCATCAGATCCTGCTCGTAGAAGAAACTCTGGACCTATTGTAAATGATGGAAACTTGTCTAGACAAAAAGCACCGGTACCAAGTGACTCAAATGGATCTAAAGAAGTTATGTTGTCTAGTTCTAATTTCTTCCGGCCTAGTGGATCTACAAGACGAGTAGGTGCTGTTTCCAACAGTCGTGATGCAGTTGTTAGCAGTGAAATTGAACCCTCTCTTCCTCTTGCCAGGGATGGTAGTCCTGGAGCACTCCTTAAAACCTCTGGTGCTCAAAGAAATTCACCTATCACATCATCGGAGCACAAAGCAACAACATCTTCTGGCAGAAACACATCAAACATGAAGAATTTTGAGTCAACTATCCGAGGTATTGAGAGCCTGAATTTCAATGACGAGAAGGTACAGTATTAG
Protein sequence

>MsaT010872.1

MEPRIGNKFRLGRKIGSGSFGEIYLGTNIQTNEEVAIKLENIKTKHPQLLYESKLYKVLQGGTGIPNVRWFGVEGEYNVLVMDLLGPSLEDLFSFCSRKLSLKTVLMLADQMINRVEYIHSKSFLHRDIKPDNFLMGLGGELIKENKNLTGTARYASMNTHLGIEQSRRDDLESLGYVLMYFLRGSLPWQGLKAGTKKQKYEKISEKKVSTSIESLCRGYPSEFASYFHYCRSLRFDDKPDYAYLKRLFRDLFIREGFQFDYVFDWTILKYQQSQIATPSARAIGSGAGPSSGLPPAVVSAERPSGGEDGRHAGWSSSDPARRRNSGPIVNDGNLSRQKAPVPSDSNGSKEVMLSSSNFFRPSGSTRRVGAVSNSRDAVVSSEIEPSLPLARDGSPGALLKTSGAQRNSPITSSEHKATTSSGRNTSNMKNFESTIRGIESLNFNDEKVQY*