AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025903


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025903 MtrunA17_Chr5g0407211 93.692 428 27 0 1 428 1 428 0.0 831
MsaG025903 MtrunA17_Chr5g0407251 92.523 428 32 0 1 428 1 428 0.0 822
MsaG025903 MtrunA17_Chr3g0134811 68.319 464 107 4 3 428 339 800 0.0 656
MsaG025903 MtrunA17_Chr7g0270101 71.233 438 89 4 3 428 384 796 0.0 644
MsaG025903 MtrunA17_Chr3g0134821 67.198 439 110 3 2 428 425 841 0.0 587
MsaG025903 MtrunA17_Chr3g0134851 49.192 433 134 7 2 421 107 466 5.26e-123 365
MsaG025903 MtrunA17_Chr5g0430361 42.956 433 208 8 3 421 652 1059 3.87e-113 356
MsaG025903 MtrunA17_Chr3g0105291 43.056 432 209 8 1 419 601 1008 7.47e-109 345
MsaG025903 MtrunA17_Chr2g0316251 33.566 429 249 7 3 419 762 1166 3.14e-71 244
MsaG025903 MtrunA17_Chr1g0205451 34.965 429 245 5 3 419 606 1012 2.22e-68 236
MsaG025903 MtrunA17_Chr1g0185491 32.598 408 243 6 3 398 812 1199 4.16e-61 214
MsaG025903 MtrunA17_Chr7g0259981 31.023 303 190 5 125 425 13 298 2.48e-47 164
MsaG025903 MtrunA17_Chr1g0182481 24.946 465 250 15 4 419 478 892 2.91e-40 153
MsaG025903 MtrunA17_Chr7g0265211 24.468 470 237 14 29 426 527 950 7.41e-32 128
MsaG025903 MtrunA17_Chr4g0055731 24.651 430 240 13 3 419 111 469 9.45e-28 115
MsaG025903 MtrunA17_Chr4g0028111 25.182 413 204 10 50 394 187 562 2.22e-25 108
MsaG025903 MtrunA17_Chr1g0179841 23.288 438 264 16 37 421 386 804 2.28e-22 100
MsaG025903 MtrunA17_Chr4g0025251 26.877 253 160 5 194 422 453 704 9.19e-19 89.0
MsaG025903 MtrunA17_Chr2g0320451 30.556 180 116 4 245 423 852 1023 1.05e-17 85.9
MsaG025903 MtrunA17_Chr2g0320451 23.129 294 144 6 7 251 470 730 1.43e-14 76.3
MsaG025903 MtrunA17_Chr3g0139561 29.891 184 100 6 217 390 191 355 4.14e-13 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025903 AT5G58610.4 41.014 434 215 7 3 419 368 777 1.37e-98 313
MsaG025903 AT5G58610.8 41.014 434 215 7 3 419 599 1008 3.17e-97 313
MsaG025903 AT5G58610.2 41.014 434 215 7 3 419 599 1008 3.17e-97 313
MsaG025903 AT5G58610.3 41.014 434 215 7 3 419 599 1008 6.78e-97 313
MsaG025903 AT5G58610.5 40.848 448 218 9 3 428 590 1012 7.16e-97 313
MsaG025903 AT5G58610.7 40.848 448 218 9 3 428 590 1012 7.98e-97 313
MsaG025903 AT5G58610.1 39.130 437 215 8 3 428 590 986 5.05e-87 286
MsaG025903 AT5G58610.6 39.130 437 215 8 3 428 590 986 6.28e-87 286
MsaG025903 AT5G58610.10 40.838 382 185 7 3 367 599 956 3.47e-82 271
MsaG025903 AT5G58610.9 40.838 382 185 7 3 367 590 947 4.03e-82 271
MsaG025903 AT5G58610.11 40.116 344 165 7 3 329 590 909 2.84e-68 233
MsaG025903 AT5G36740.5 32.401 429 254 6 3 419 545 949 4.42e-67 232
MsaG025903 AT5G36740.1 32.401 429 254 6 3 419 545 949 4.42e-67 232
MsaG025903 AT3G14980.3 31.640 433 262 6 3 425 621 1029 4.19e-64 223
MsaG025903 AT1G05380.3 33.021 427 255 6 3 419 520 925 4.31e-64 223
MsaG025903 AT1G05380.1 33.021 427 255 6 3 419 520 925 4.31e-64 223
MsaG025903 AT1G05380.2 33.021 427 255 6 3 419 520 925 4.31e-64 223
MsaG025903 AT3G14980.5 31.640 433 262 6 3 425 576 984 8.63e-64 222
MsaG025903 AT3G14980.6 31.640 433 262 6 3 425 621 1029 1.12e-63 222
MsaG025903 AT3G14980.1 31.640 433 262 6 3 425 621 1029 1.12e-63 222
MsaG025903 AT3G14980.2 31.640 433 262 6 3 425 621 1029 1.12e-63 222
MsaG025903 AT5G36740.4 31.435 439 255 7 3 419 392 806 1.28e-63 221
MsaG025903 AT5G63900.1 36.858 331 190 8 94 421 228 542 4.20e-62 210
MsaG025903 AT4G14920.2 31.019 432 261 6 3 422 580 986 4.97e-60 211
MsaG025903 AT4G14920.1 31.019 432 261 6 3 422 580 986 4.97e-60 211
MsaG025903 AT4G14920.3 31.019 432 261 6 3 422 580 986 5.43e-60 211
MsaG025903 AT5G36670.4 30.337 445 256 8 3 419 545 963 1.23e-58 207
MsaG025903 AT5G36670.5 30.337 445 256 8 3 419 545 963 1.23e-58 207
MsaG025903 AT5G36670.2 32.345 371 215 6 3 361 545 891 7.45e-57 201
MsaG025903 AT5G36740.2 32.345 371 215 6 3 361 545 891 7.45e-57 201
MsaG025903 AT5G36740.3 32.345 371 215 6 3 361 545 891 7.45e-57 201
MsaG025903 AT5G36670.3 29.451 455 257 9 3 419 392 820 6.25e-55 196
MsaG025903 AT5G36670.1 29.451 455 257 9 3 419 545 973 1.39e-54 196
MsaG025903 AT3G14980.4 30.473 338 201 6 3 330 621 934 1.61e-42 160
MsaG025903 AT3G53680.2 28.358 469 232 17 4 417 411 830 1.22e-40 154
MsaG025903 AT2G37520.1 26.050 476 235 14 4 417 392 812 1.30e-40 154
MsaG025903 AT3G53680.1 28.358 469 232 17 4 417 409 828 1.35e-40 154
MsaG025903 AT2G36720.1 25.470 479 251 14 13 423 533 973 1.05e-38 149
MsaG025903 AT2G36720.2 25.470 479 251 14 13 423 533 973 1.05e-38 149
MsaG025903 AT2G27980.1 24.395 496 255 16 6 422 606 1060 4.55e-32 129

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATTATCTGCAACCTTAAT+TGG 0.181951 5:-14211961 None:intergenic
TTCACATTCTTGTTTGCATT+TGG 0.183779 5:-14211776 None:intergenic
GTTTGTTCAGTTTGTGGTTT+TGG 0.236361 5:+14211631 MsaT025903.1:CDS
TGGTTTCTATAATGTGATTT+TGG 0.241530 5:+14212176 MsaT025903.1:CDS
GTGGCAACTATAAGAATTTA+TGG 0.245404 5:+14212222 MsaT025903.1:CDS
ATCAACTCTCTTCCTGATAA+AGG 0.280267 5:-14212102 None:intergenic
TCACATTCTTGTTTGCATTT+GGG 0.312904 5:-14211775 None:intergenic
GCATTCCACCTCCGGTGTTT+AGG 0.316446 5:+14211688 MsaT025903.1:CDS
GTTGATAAAGAATCAAGTTT+TGG 0.324712 5:+14211267 MsaT025903.1:CDS
TTATGTCTAAAGAAGTTGTT+AGG 0.347395 5:+14211934 MsaT025903.1:CDS
AAAGGAGAGTAAGTTGAATA+TGG 0.354999 5:+14212038 MsaT025903.1:CDS
AATTTAATCACATGGAGAAT+TGG 0.356404 5:+14211881 MsaT025903.1:CDS
AAACGATGGGTATTGTTTCT+TGG 0.373623 5:+14211245 None:intergenic
GATAGTGTTTGTTCAGTTTG+TGG 0.378867 5:+14211625 MsaT025903.1:CDS
CTGGGTTCGCATGATCATAT+AGG 0.387880 5:+14211496 MsaT025903.1:CDS
GGATTGTCAAAGGGAAGCTC+TGG 0.400874 5:+14211477 MsaT025903.1:CDS
AACACTTGGACAAGATCATT+TGG 0.403595 5:+14212393 MsaT025903.1:CDS
TGAAGAGGAGTTTAATCAAA+AGG 0.404213 5:+14212020 MsaT025903.1:CDS
GTCCTTCTGCATTCCACCTC+CGG 0.404287 5:+14211680 MsaT025903.1:CDS
AAGCACTGAAAAGACCTATA+TGG 0.410177 5:+14212499 MsaT025903.1:CDS
GGCTCTTGGTGTATTGTATG+AGG 0.423950 5:+14212059 MsaT025903.1:CDS
ACCATCCACAAGTATCTTGT+TGG 0.424383 5:+14211435 MsaT025903.1:CDS
GTTGTTAGGAAAACCAATTA+AGG 0.435095 5:+14211948 MsaT025903.1:CDS
TATAAGAATTTATGGTCAAA+AGG 0.441015 5:+14212230 MsaT025903.1:CDS
AGTAACAAAGTTGTCAAAAG+AGG 0.441397 5:+14211319 MsaT025903.1:CDS
ATCGAGTTCCGCTTGGTGAA+TGG 0.464422 5:+14211716 MsaT025903.1:CDS
CAAGCAATGCAAGGCCATAT+AGG 0.465235 5:-14212513 None:intergenic
CCTGATAAAGGATCAAAAGT+TGG 0.477884 5:-14212090 None:intergenic
ACAAGTATCTTGTTGGAAGA+TGG 0.480189 5:+14211442 MsaT025903.1:CDS
TTGTCTTCGATACTGTTCCT+TGG 0.482098 5:-14212277 None:intergenic
GGAAGATGGAAGGTCGTTGT+TGG 0.488980 5:+14211456 MsaT025903.1:CDS
TGGGTTCGCATGATCATATA+GGG 0.493127 5:+14211497 MsaT025903.1:CDS
GCTCTTGGTGTATTGTATGA+GGG 0.493509 5:+14212060 MsaT025903.1:CDS
GAGAAACAGTTAACTCGCTT+AGG 0.495020 5:+14212330 MsaT025903.1:CDS
AGGAATGTGTCATTTGTTGA+TGG 0.496868 5:+14212299 MsaT025903.1:CDS
CAGAGGATGCTATGAACACT+TGG 0.500216 5:+14212379 MsaT025903.1:CDS
GTGATTAAATTCAATTCCTA+CGG 0.512914 5:-14211869 None:intergenic
GTCGTTGTTGGATTGTCAAA+GGG 0.517227 5:+14211468 MsaT025903.1:CDS
TCTTCGATACTGTTCCTTGG+TGG 0.524421 5:-14212274 None:intergenic
GGTCGTTGTTGGATTGTCAA+AGG 0.528790 5:+14211467 MsaT025903.1:CDS
AGTAAGTTGAATATGGCTCT+TGG 0.540429 5:+14212045 MsaT025903.1:CDS
TGAGACCTAAACACCGGAGG+TGG 0.542694 5:-14211693 None:intergenic
ATCTTCCAACAAGATACTTG+TGG 0.550941 5:-14211440 None:intergenic
GGTCTCAATCGAGTTCCGCT+TGG 0.551276 5:+14211709 MsaT025903.1:CDS
ATATCACTTTGGATGCGTAA+AGG 0.554258 5:+14211846 MsaT025903.1:CDS
TGTGAATAGTGTTGATGAAG+AGG 0.557314 5:+14212005 MsaT025903.1:CDS
CACCGGCTTCGAGTCTCATG+CGG 0.565673 5:+14211396 MsaT025903.1:CDS
ACCGGCTTCGAGTCTCATGC+GGG 0.580291 5:+14211397 MsaT025903.1:CDS
GTAACAAAGTTGTCAAAAGA+GGG 0.581494 5:+14211320 MsaT025903.1:CDS
GATTGTCAAAGGGAAGCTCT+GGG 0.597706 5:+14211478 MsaT025903.1:CDS
AGGAATTGAATTTAATCACA+TGG 0.598130 5:+14211873 MsaT025903.1:CDS
TTTCAGTGCTTTGAGACACA+TGG 0.604056 5:-14212487 None:intergenic
AGATAATCTAACATGGACAT+TGG 0.607457 5:+14211975 MsaT025903.1:CDS
CTCCAACATCAAGCAATGCA+AGG 0.609626 5:-14212522 None:intergenic
TCCAACAAGATACTTGTGGA+TGG 0.616702 5:-14211436 None:intergenic
CACCGGAGGTGGAATGCAGA+AGG 0.621708 5:-14211682 None:intergenic
ACCCGCATGAGACTCGAAGC+CGG 0.625739 5:-14211398 None:intergenic
GTATCTTGTTGGAAGATGGA+AGG 0.629827 5:+14211446 MsaT025903.1:CDS
ATTACTTCTGCATTCCTCAG+AGG 0.633654 5:+14212362 MsaT025903.1:CDS
ACAAGAATGTGAAGATCACA+AGG 0.637763 5:+14211786 MsaT025903.1:CDS
AATGGGTGAAGTGATTTCAG+TGG 0.642896 5:+14212203 MsaT025903.1:CDS
TTTGGATGCGTAAAGGCCGT+AGG 0.643030 5:+14211853 MsaT025903.1:CDS
CTCGATTGAGACCTAAACAC+CGG 0.653298 5:-14211699 None:intergenic
AAATCACATTATAGAAACCA+CGG 0.660195 5:-14212173 None:intergenic
AGGTTGCAGATAATCTAACA+TGG 0.665981 5:+14211968 MsaT025903.1:CDS
GGACAAAACCATTCACCAAG+CGG 0.675521 5:-14211724 None:intergenic
AAGGAACAGTATCGAAGACA+AGG 0.678537 5:+14212279 MsaT025903.1:CDS
ACTACCCTGACAGAAAACAT+TGG 0.690433 5:-14211299 None:intergenic
AGTGTTCATAGCATCCTCTG+AGG 0.736105 5:-14212376 None:intergenic
GATTGAGACCTAAACACCGG+AGG 0.741957 5:-14211696 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 14211250 14212536 14211250 ID=MsaG025903
Chr5 mRNA 14211250 14212536 14211250 ID=MsaT025903.1;Parent=MsaG025903
Chr5 exon 14211250 14212536 14211250 ID=MsaT025903.1.exon1;Parent=MsaT025903.1
Chr5 CDS 14211250 14212536 14211250 ID=cds.MsaT025903.1;Parent=MsaT025903.1
Gene Sequence

>MsaT025903.1

ATGGGTATTGTTTCTTGGTTGATAAAGAATCAAGTTTTGGTTTCAGGGACCAATGTTTTCTGTCAGGGTAGTAACAAAGTTGTCAAAAGAGGGAGTTTGTTTTCTGATGCTATAGTCTGTGATTGTTGTCGTGTTACTTTTACTATCACCGGCTTCGAGTCTCATGCGGGTTGTACAAGACATAGACCATCCACAAGTATCTTGTTGGAAGATGGAAGGTCGTTGTTGGATTGTCAAAGGGAAGCTCTGGGTTCGCATGATCATATAGGGAATCATTGTGTTGTCAAAGAAAATCAAAAGAAGAATCATTCTATTGTCAAAGAAAATCGAAAGAAGAATCATTGTGCTGTCAAAGAAAAATCTGAAGCAAATAACGATAGTGTTTGTTCAGTTTGTGGTTTTGGAGGTGACTTGGCACTATGCGATCGATGTCCTTCTGCATTCCACCTCCGGTGTTTAGGTCTCAATCGAGTTCCGCTTGGTGAATGGTTTTGTCCAACTTGTTGTTGCAAAATATGCTATCGACCCAAATGCAAACAAGAATGTGAAGATCACAAGGATAATCAGATTCTTGTTTGTGTTCAATGTGAGCAAAAATATCACTTTGGATGCGTAAAGGCCGTAGGAATTGAATTTAATCACATGGAGAATTGGTTTTGCAGTGTAGTTTGTGGGAACATGTTCTTATGTCTAAAGAAGTTGTTAGGAAAACCAATTAAGGTTGCAGATAATCTAACATGGACATTGGTGAAGAATGTGAATAGTGTTGATGAAGAGGAGTTTAATCAAAAGGAGAGTAAGTTGAATATGGCTCTTGGTGTATTGTATGAGGGTTTTAATCCAACTTTTGATCCTTTATCAGGAAGAGAGTTGATTAAAGATGTTGTTTTTAGTAGAGAATCAGAACAAAAACGCTTAAACTTCCGTGGTTTCTATAATGTGATTTTGGAGAAAATGGGTGAAGTGATTTCAGTGGCAACTATAAGAATTTATGGTCAAAAGGTTGCAGAGATAGTTTTCGTGGCCACCAAGGAACAGTATCGAAGACAAGGAATGTGTCATTTGTTGATGGATGAGATTGAGAAACAGTTAACTCGCTTAGGAGTTGAGAAATTACTTCTGCATTCCTCAGAGGATGCTATGAACACTTGGACAAGATCATTTGGTTTTGCAAGGATGAATAGTAAAGATAAGTGTCAGTTTATTGATCATACTTTTTTAGAATTTGAGAATGGTACCATGTGTCTCAAAGCACTGAAAAGACCTATATGGCCTTGCATTGCTTGA

Protein sequence

>MsaT025903.1

MGIVSWLIKNQVLVSGTNVFCQGSNKVVKRGSLFSDAIVCDCCRVTFTITGFESHAGCTRHRPSTSILLEDGRSLLDCQREALGSHDHIGNHCVVKENQKKNHSIVKENRKKNHCAVKEKSEANNDSVCSVCGFGGDLALCDRCPSAFHLRCLGLNRVPLGEWFCPTCCCKICYRPKCKQECEDHKDNQILVCVQCEQKYHFGCVKAVGIEFNHMENWFCSVVCGNMFLCLKKLLGKPIKVADNLTWTLVKNVNSVDEEEFNQKESKLNMALGVLYEGFNPTFDPLSGRELIKDVVFSRESEQKRLNFRGFYNVILEKMGEVISVATIRIYGQKVAEIVFVATKEQYRRQGMCHLLMDEIEKQLTRLGVEKLLLHSSEDAMNTWTRSFGFARMNSKDKCQFIDHTFLEFENGTMCLKALKRPIWPCIA*