AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000171

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000171 MtrunA17_Chr1g0155301 87.915 422 9 2 1 380 1 422 0.0 754
MsaG000171 MtrunA17_Chr5g0404321 59.242 422 124 7 1 380 1 416 1.21e-171 485
MsaG000171 MtrunA17_Chr8g0373001 58.432 421 125 7 1 380 1 412 7.36e-164 465
MsaG000171 MtrunA17_Chr1g0156151 85.652 230 21 2 1 227 1 221 1.24e-133 381
MsaG000171 MtrunA17_Chr1g0201891 48.081 443 155 9 1 380 1 431 1.83e-133 388
MsaG000171 MtrunA17_Chr2g0278511 48.966 435 159 8 1 380 1 427 8.86e-133 387
MsaG000171 MtrunA17_Chr2g0286441 54.848 361 123 5 57 380 36 393 5.33e-130 378
MsaG000171 MtrunA17_Chr1g0196071 48.622 399 163 7 20 380 8 402 1.07e-120 355
MsaG000171 MtrunA17_Chr2g0315641 47.592 353 134 5 58 380 40 371 1.61e-107 320
MsaG000171 MtrunA17_Chr8g0373361 43.990 416 169 10 1 373 11 405 9.76e-103 309
MsaG000171 MtrunA17_Chr8g0373331 39.851 404 152 8 1 371 1 346 1.40e-85 263
MsaG000171 MtrunA17_Chr2g0315651 43.978 357 144 10 57 380 34 367 1.91e-84 261
MsaG000171 MtrunA17_Chr8g0373341 41.538 390 138 11 1 370 1 320 1.37e-69 221
MsaG000171 MtrunA17_Chr8g0373351 35.890 365 113 8 51 377 10 291 1.11e-54 182
MsaG000171 MtrunA17_Chr3g0091401 44.792 96 46 2 105 200 11 99 5.80e-17 75.9
MsaG000171 MtrunA17_Chr2g0334041 28.947 266 123 15 140 379 134 359 6.26e-14 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000171 AT1G47270.3 60.313 383 116 5 28 380 12 388 3.45e-157 447
MsaG000171 AT1G47270.1 58.272 405 127 6 6 380 21 413 3.65e-157 448
MsaG000171 AT1G47270.2 58.168 404 127 6 7 380 21 412 4.49e-157 448
MsaG000171 AT2G18280.2 54.015 411 140 8 1 380 1 393 9.52e-144 414
MsaG000171 AT2G18280.1 54.015 411 140 8 1 380 1 393 9.52e-144 414
MsaG000171 AT2G47900.2 48.077 416 170 6 1 380 1 406 1.28e-130 380
MsaG000171 AT2G47900.1 48.077 416 170 6 1 380 1 406 1.28e-130 380
MsaG000171 AT2G47900.3 47.962 417 170 7 1 380 1 407 7.29e-129 376
MsaG000171 AT1G25280.1 47.661 449 162 9 1 380 1 445 1.38e-127 374
MsaG000171 AT1G76900.2 45.690 464 159 8 1 380 1 455 5.38e-124 365
MsaG000171 AT1G76900.1 45.690 464 159 8 1 380 1 455 5.38e-124 365
MsaG000171 AT1G76900.3 45.690 464 159 8 1 380 1 455 5.38e-124 365
MsaG000171 AT1G43640.1 43.665 442 174 10 1 380 1 429 7.40e-115 341
MsaG000171 AT3G06380.1 48.501 367 153 6 46 380 18 380 1.92e-112 333
MsaG000171 AT5G18680.1 49.307 361 143 8 55 380 34 389 3.52e-110 328
MsaG000171 AT1G53320.1 45.316 395 162 7 19 380 6 379 1.33e-106 318
MsaG000171 AT1G43640.2 46.721 366 135 6 72 380 1 363 6.20e-105 313
MsaG000171 AT3G06380.2 48.264 288 115 4 123 380 5 288 2.27e-88 269
MsaG000171 AT5G18680.2 48.667 300 115 7 115 380 3 297 3.81e-87 266
MsaG000171 AT1G25280.3 47.566 267 74 5 180 380 1 267 4.08e-70 221
MsaG000171 AT1G25280.2 47.566 267 74 5 180 380 1 267 4.08e-70 221
MsaG000171 AT1G61940.2 51.724 87 42 0 63 149 1 87 2.82e-25 103
MsaG000171 AT1G61940.1 54.098 61 28 0 63 123 1 61 7.97e-15 73.9

Find 78 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGTATTTGCAGCTCTTTC+TGG 0.147891 1:+2249070 MsaT000171.1:intron
AAGCCAGAAGTTGTTGAATT+TGG 0.203153 1:+2249606 MsaT000171.1:CDS
GTGCCTCAGTTTGTAGATTA+TGG 0.216681 1:+2248426 MsaT000171.1:CDS
GTTCTGCAGCTGAAACATTT+TGG 0.237846 1:-2249785 None:intergenic
TAGGAGCAGTTCCTCCTTCT+TGG 0.256813 1:-2249530 None:intergenic
TCCTTCTTGGACTGAAGATA+TGG 0.272539 1:-2249517 None:intergenic
GAGCCAAATTCAACAACTTC+TGG 0.280199 1:-2249609 None:intergenic
CTCTCTGATGATGGTGTTGT+TGG 0.286926 1:-2248305 None:intergenic
ATTACCTGCTTCAGTGATAT+AGG 0.293400 1:-2248506 None:intergenic
TGCTGCAACTTGCAACTTGA+TGG 0.318405 1:-2249364 None:intergenic
TCCACATATAGTTTATATCT+TGG 0.326644 1:+2248695 MsaT000171.1:CDS
CACTGAATTGGATTGTCTCT+TGG 0.352418 1:-2248647 None:intergenic
CTCTTAATAAAACACTGAAT+TGG 0.367629 1:-2248659 None:intergenic
ATACTTACATTGGAAAGTTA+AGG 0.392067 1:+2249194 MsaT000171.1:CDS
TTCATGCTCATTGTGGCAAT+TGG 0.398540 1:-2249568 None:intergenic
GTTGGTGCTGATAGTGATAT+TGG 0.400859 1:-2248287 None:intergenic
TTACCTGCTTCAGTGATATA+GGG 0.408155 1:-2248505 None:intergenic
CACCATCATCAGAGAGTCAA+TGG 0.410827 1:+2248312 MsaT000171.1:CDS
ACCAAGTTCACGATCTTAGA+TGG 0.416091 1:+2249316 MsaT000171.1:CDS
TGCAGTTGTTCATGCCATCT+TGG 0.442171 1:-2249681 None:intergenic
CCTTCTTGGACTGAAGATAT+GGG 0.443500 1:-2249516 None:intergenic
GAGTATTGTGAGAGAGATGA+AGG 0.449992 1:+2248166 MsaT000171.1:CDS
ACCATCTAAGATCGTGAACT+TGG 0.451643 1:-2249317 None:intergenic
AAGGAGATGAAAGAGGGAAT+TGG 0.461217 1:+2248185 MsaT000171.1:CDS
GATATTGGTGAGGAACATTC+TGG 0.475287 1:-2248272 None:intergenic
ATTGGATTGTCTCTTGGAGC+AGG 0.482570 1:-2248641 None:intergenic
GGGACGGGTTACAGTGGCTT+CGG 0.485242 1:+2249725 MsaT000171.1:CDS
AGGAACTGCTCCTACTCCTA+TGG 0.485778 1:+2249539 MsaT000171.1:CDS
GAGATGAAGGAGATGAAAGA+GGG 0.489271 1:+2248179 MsaT000171.1:CDS
GTGTTTGAATTTCAAGGGAC+GGG 0.490017 1:+2249710 MsaT000171.1:CDS
AGGAGTTATCATTCACAAGC+TGG 0.492801 1:-2249927 None:intergenic
TGATATGAGCAAACTTCTCT+TGG 0.505017 1:+2249093 MsaT000171.1:CDS
TTATATCTTGGTCTAAGCCC+TGG 0.508714 1:+2248707 MsaT000171.1:CDS
AGAGATGAAGGAGATGAAAG+AGG 0.511465 1:+2248178 MsaT000171.1:CDS
AGACACTTGAACAGTGTGGC+TGG 0.511733 1:+2248474 MsaT000171.1:CDS
CAAGTTGCAAGTTGCAGCAA+AGG 0.511810 1:+2249368 MsaT000171.1:CDS
ACTATTAGACATAATTCAAA+GGG 0.516941 1:+2248355 MsaT000171.1:CDS
ACCAAGATATAAACTATATG+TGG 0.517704 1:-2248696 None:intergenic
ATTGTACTCCGCATTCGCCT+TGG 0.518756 1:-2249483 None:intergenic
GGTGTTTGAATTTCAAGGGA+CGG 0.518832 1:+2249709 MsaT000171.1:CDS
TTATGGAGAGACATAACAAA+GGG 0.526760 1:+2248443 MsaT000171.1:CDS
AGAGCTAACAATACTTACAT+TGG 0.531671 1:+2249184 MsaT000171.1:CDS
TGGCAATTGGTAAATTCCAT+AGG 0.538026 1:-2249555 None:intergenic
TTTCCCTATATCACTGAAGC+AGG 0.541444 1:+2248502 MsaT000171.1:CDS
ATGTTGGTGTTTGAATTTCA+AGG 0.542716 1:+2249704 MsaT000171.1:CDS
TTGGTAAATTCCATAGGAGT+AGG 0.543440 1:-2249549 None:intergenic
GCCCATTGACTCTCTGATGA+TGG 0.543492 1:-2248314 None:intergenic
TACTATTAGACATAATTCAA+AGG 0.554134 1:+2248354 MsaT000171.1:CDS
ATTATGTCTAATAGTAACTC+AGG 0.562516 1:-2248347 None:intergenic
TGTTGGTGTTTGAATTTCAA+GGG 0.562671 1:+2249705 MsaT000171.1:CDS
GCTACAAGTGCTCGGCGAGA+TGG 0.582646 1:-2248401 None:intergenic
ACCATCATCAGAGAGTCAAT+GGG 0.583262 1:+2248313 MsaT000171.1:CDS
TTGCAGATTCATGCTCATTG+TGG 0.583392 1:-2249575 None:intergenic
TCTCTCACAATACTCTTGAA+AGG 0.583510 1:-2248158 None:intergenic
CCCATATCTTCAGTCCAAGA+AGG 0.587259 1:+2249516 MsaT000171.1:CDS
GGCATGAACAACTGCAATGT+TGG 0.599403 1:+2249688 MsaT000171.1:CDS
GAGAGGATATCGATAATCCA+TGG 0.599763 1:-2249856 None:intergenic
CTTCTTGGACTGAAGATATG+GGG 0.599973 1:-2249515 None:intergenic
CGAGAGGTCCAAGGCGAATG+CGG 0.601851 1:+2249475 MsaT000171.1:intron
ATTAGACATAATTCAAAGGG+TGG 0.608482 1:+2248358 MsaT000171.1:CDS
ACTAAGCTTATGCATAGACA+TGG 0.614879 1:+2248233 MsaT000171.1:CDS
TTCTTCGTACGAGAGGTCCA+AGG 0.616949 1:+2249466 MsaT000171.1:intron
GCTGCTCAAACAGATTGCAA+AGG 0.630739 1:-2249892 None:intergenic
ATTGGCAACATGTATAGAAG+AGG 0.636703 1:+2248203 MsaT000171.1:CDS
CGGGAAGGACATATTCACCA+TGG 0.637363 1:+2249839 MsaT000171.1:CDS
TGGAAGCTAGTGAAACCACT+TGG 0.639315 1:+2248378 MsaT000171.1:CDS
TTTCAAGGGACGGGTTACAG+TGG 0.641025 1:+2249719 MsaT000171.1:CDS
AGGCACAAGCTACAAGTGCT+CGG 0.645228 1:-2248409 None:intergenic
ATGTCTAATAGTAACTCAGG+AGG 0.663267 1:-2248344 None:intergenic
AAGGCTTGAAAAGCAGAGAG+AGG 0.664732 1:-2249873 None:intergenic
ATTATGGAGAGACATAACAA+AGG 0.674047 1:+2248442 MsaT000171.1:CDS
ATATCTTCAGTCCAAGAAGG+AGG 0.675556 1:+2249519 MsaT000171.1:CDS
TCTCCATAATCTACAAACTG+AGG 0.678466 1:-2248429 None:intergenic
TGCTCGGCGAGATGGCCAAG+TGG 0.681754 1:-2248393 None:intergenic
TGCTGATAGTGATATTGGTG+AGG 0.701371 1:-2248282 None:intergenic
GATGGAAGCGAAGAAACATG+TGG 0.713919 1:-2249346 None:intergenic
GGAAGCGAAGAAACATGTGG+AGG 0.757377 1:-2249343 None:intergenic
GTTAAGACACTTGAACAGTG+TGG 0.771470 1:+2248470 MsaT000171.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 2248155 2249941 2248155 ID=MsaG000171
Chr1 mRNA 2248155 2249941 2248155 ID=MsaT000171.1;Parent=MsaG000171
Chr1 exon 2248155 2248523 2248155 ID=MsaT000171.1.exon1;Parent=MsaT000171.1
Chr1 CDS 2248155 2248523 2248155 ID=cds.MsaT000171.1;Parent=MsaT000171.1
Chr1 exon 2248641 2248728 2248641 ID=MsaT000171.1.exon2;Parent=MsaT000171.1
Chr1 CDS 2248641 2248728 2248641 ID=cds.MsaT000171.1;Parent=MsaT000171.1
Chr1 exon 2249083 2249215 2249083 ID=MsaT000171.1.exon3;Parent=MsaT000171.1
Chr1 CDS 2249083 2249215 2249083 ID=cds.MsaT000171.1;Parent=MsaT000171.1
Chr1 exon 2249300 2249389 2249300 ID=MsaT000171.1.exon4;Parent=MsaT000171.1
Chr1 CDS 2249300 2249389 2249300 ID=cds.MsaT000171.1;Parent=MsaT000171.1
Chr1 exon 2249479 2249941 2249479 ID=MsaT000171.1.exon5;Parent=MsaT000171.1
Chr1 CDS 2249479 2249941 2249479 ID=cds.MsaT000171.1;Parent=MsaT000171.1
Gene Sequence

>MsaT000171.1

ATGCCTTTCAAGAGTATTGTGAGAGAGATGAAGGAGATGAAAGAGGGAATTGGCAACATGTATAGAAGAGGTGTAGAAACTAAGCTTATGCATAGACATGGAAAATCTCACATAGCACCAGAATGTTCCTCACCAATATCACTATCAGCACCAACAACACCATCATCAGAGAGTCAATGGGCTAATTTACCTCCTGAGTTACTATTAGACATAATTCAAAGGGTGGAAGCTAGTGAAACCACTTGGCCATCTCGCCGAGCACTTGTAGCTTGTGCCTCAGTTTGTAGATTATGGAGAGACATAACAAAGGGTGTTGTTAAGACACTTGAACAGTGTGGCTGGATCACTTTCCCTATATCACTGAAGCAGCCTGCTCCAAGAGACAATCCAATTCAGTGTTTTATTAAGAGAGAAAGGGCTACTTCCACATATAGTTTATATCTTGGTCTAAGCCCTGCTCTTTCTGGTGATATGAGCAAACTTCTCTTGGCAGCAAAGAAGATTAGAAGAGCAACATGCACAGAATTTTTAATATCATTGGTTTCTGATGATTTCTCTAGAGCTAACAATACTTACATTGGAAAGTTAAGGTCTAATTTTCTCGGCACCAAGTTCACGATCTTAGATGGTCATCCTCCACATGTTTCTTCGCTTCCATCAAGTTGCAAGTTGCAGCAAAGAGGTCCAAGGCGAATGCGGAGTACAATGCACTTAATCCCCATATCTTCAGTCCAAGAAGGAGGAACTGCTCCTACTCCTATGGAATTTACCAATTGCCACAATGAGCATGAATCTGCAAAAGAAAAGAAGCCAGAAGTTGTTGAATTTGGCTCAACTTGCACTGATTTTGCAAGAGAGCCTCTGATTTTGAAAAACAAAGCACCAAGATGGCATGAACAACTGCAATGTTGGTGTTTGAATTTCAAGGGACGGGTTACAGTGGCTTCGGTGAAGAATTTTCAGCTTGTAGCAGTTGCAGAACCTAGCCAAAATGTTTCAGCTGCAGAACAAGAAAAAGTTATACTACAATTTGGAAAAATCGGGAAGGACATATTCACCATGGATTATCGATATCCTCTCTCTGCTTTTCAAGCCTTTGCAATCTGTTTGAGCAGCTTTGACACAAAACCAGCTTGTGAATGA
Protein sequence

>MsaT000171.1

MPFKSIVREMKEMKEGIGNMYRRGVETKLMHRHGKSHIAPECSSPISLSAPTTPSSESQWANLPPELLLDIIQRVEASETTWPSRRALVACASVCRLWRDITKGVVKTLEQCGWITFPISLKQPAPRDNPIQCFIKRERATSTYSLYLGLSPALSGDMSKLLLAAKKIRRATCTEFLISLVSDDFSRANNTYIGKLRSNFLGTKFTILDGHPPHVSSLPSSCKLQQRGPRRMRSTMHLIPISSVQEGGTAPTPMEFTNCHNEHESAKEKKPEVVEFGSTCTDFAREPLILKNKAPRWHEQLQCWCLNFKGRVTVASVKNFQLVAVAEPSQNVSAAEQEKVILQFGKIGKDIFTMDYRYPLSAFQAFAICLSSFDTKPACE*