AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016986


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016986 MtrunA17_Chr3g0134851 80.110 543 37 4 1 543 1 472 0.0 762
MsaG016986 MtrunA17_Chr7g0270101 51.166 643 177 12 4 536 173 788 0.0 557
MsaG016986 MtrunA17_Chr3g0134821 57.319 567 185 10 4 537 292 834 0.0 545
MsaG016986 MtrunA17_Chr3g0134811 48.827 682 183 12 3 537 131 793 0.0 539
MsaG016986 MtrunA17_Chr5g0407211 57.175 439 156 9 108 535 2 419 4.03e-164 473
MsaG016986 MtrunA17_Chr5g0407251 56.492 439 159 9 108 535 2 419 1.75e-161 466
MsaG016986 MtrunA17_Chr5g0430361 36.481 540 272 14 16 537 573 1059 1.28e-92 305
MsaG016986 MtrunA17_Chr3g0105291 37.030 505 268 12 45 535 540 1008 1.59e-86 290
MsaG016986 MtrunA17_Chr2g0316251 34.459 444 243 10 105 535 758 1166 3.21e-68 239
MsaG016986 MtrunA17_Chr1g0205451 33.976 415 234 7 105 509 602 986 2.91e-61 219
MsaG016986 MtrunA17_Chr1g0185491 32.584 445 268 12 105 542 808 1227 3.71e-61 218
MsaG016986 MtrunA17_Chr1g0182481 26.897 435 217 14 143 523 496 883 2.12e-39 153
MsaG016986 MtrunA17_Chr7g0259981 30.132 302 165 9 222 516 13 275 1.04e-34 133
MsaG016986 MtrunA17_Chr1g0179841 25.495 455 229 15 143 530 386 797 3.91e-32 131
MsaG016986 MtrunA17_Chr7g0265211 25.586 469 229 17 135 533 527 945 7.91e-31 127
MsaG016986 MtrunA17_Chr4g0028111 23.990 421 205 12 156 508 187 560 1.61e-21 98.6
MsaG016986 MtrunA17_Chr4g0027811 23.707 464 221 15 107 520 182 562 3.14e-21 97.4
MsaG016986 MtrunA17_Chr4g0055731 22.575 536 307 18 16 529 14 463 5.84e-21 95.9
MsaG016986 MtrunA17_Chr4g0025251 26.877 253 139 9 294 519 453 686 2.80e-18 88.6
MsaG016986 MtrunA17_Chr2g0320451 25.000 192 135 4 347 535 838 1023 3.35e-15 79.0
MsaG016986 MtrunA17_Chr2g0320451 34.586 133 48 4 143 268 500 600 1.53e-11 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016986 AT5G58610.4 35.729 501 266 11 66 541 314 783 2.16e-83 277
MsaG016986 AT5G58610.8 35.729 501 266 11 66 541 545 1014 3.29e-82 276
MsaG016986 AT5G58610.2 35.729 501 266 11 66 541 545 1014 3.29e-82 276
MsaG016986 AT5G58610.3 35.729 501 266 11 66 541 545 1014 5.63e-82 277
MsaG016986 AT5G58610.7 35.729 501 266 11 66 541 536 1005 9.40e-82 276
MsaG016986 AT5G58610.5 35.729 501 266 11 66 541 536 1005 1.02e-81 276
MsaG016986 AT5G58610.1 34.608 497 251 11 66 541 536 979 1.82e-74 256
MsaG016986 AT5G58610.6 34.608 497 251 11 66 541 536 979 2.45e-74 255
MsaG016986 AT5G58610.10 34.932 438 229 11 66 478 545 951 4.69e-66 231
MsaG016986 AT5G58610.9 32.777 479 275 12 13 478 498 942 4.99e-66 231
MsaG016986 AT5G36740.5 31.103 553 331 14 6 541 436 955 7.61e-66 232
MsaG016986 AT5G36740.1 31.103 553 331 14 6 541 436 955 7.61e-66 232
MsaG016986 AT5G36740.4 30.769 559 331 15 8 541 285 812 7.88e-63 223
MsaG016986 AT3G14980.5 31.164 507 278 16 50 535 522 978 2.39e-59 213
MsaG016986 AT3G14980.3 31.164 507 278 16 50 535 567 1023 2.69e-59 213
MsaG016986 AT3G14980.6 31.164 507 278 16 50 535 567 1023 2.87e-59 213
MsaG016986 AT3G14980.1 31.164 507 278 16 50 535 567 1023 2.87e-59 213
MsaG016986 AT3G14980.2 31.164 507 278 16 50 535 567 1023 2.87e-59 213
MsaG016986 AT1G05380.3 32.273 440 265 9 105 538 516 928 1.48e-58 211
MsaG016986 AT1G05380.1 32.273 440 265 9 105 538 516 928 1.48e-58 211
MsaG016986 AT1G05380.2 32.273 440 265 9 105 538 516 928 1.48e-58 211
MsaG016986 AT5G36670.4 29.350 569 334 16 6 541 436 969 9.93e-58 208
MsaG016986 AT5G36670.5 29.350 569 334 16 6 541 436 969 9.93e-58 208
MsaG016986 AT5G36670.2 31.493 489 285 14 6 477 436 891 6.12e-57 205
MsaG016986 AT5G36740.2 31.493 489 285 14 6 477 436 891 6.12e-57 205
MsaG016986 AT5G36740.3 31.493 489 285 14 6 477 436 891 6.12e-57 205
MsaG016986 AT5G36670.3 28.943 577 336 17 6 541 283 826 6.71e-55 200
MsaG016986 AT4G14920.2 28.707 526 296 17 14 525 513 973 1.90e-54 199
MsaG016986 AT4G14920.1 28.707 526 296 17 14 525 513 973 1.90e-54 199
MsaG016986 AT4G14920.3 28.707 526 296 17 14 525 513 973 1.96e-54 199
MsaG016986 AT5G36670.1 28.943 577 336 17 6 541 436 979 2.48e-54 199
MsaG016986 AT5G63900.1 36.562 320 169 9 222 538 255 543 5.63e-54 192
MsaG016986 AT5G58610.11 33.827 405 212 11 66 445 536 909 1.02e-53 196
MsaG016986 AT2G37520.1 27.714 433 226 14 143 524 410 806 8.06e-39 152
MsaG016986 AT3G53680.1 28.502 414 215 13 143 510 427 805 1.55e-38 151
MsaG016986 AT3G53680.2 28.502 414 215 13 143 510 429 807 1.60e-38 151
MsaG016986 AT3G14980.4 30.144 418 221 16 50 446 567 934 5.44e-38 149
MsaG016986 AT2G36720.1 24.138 464 244 11 143 540 557 978 2.32e-35 142
MsaG016986 AT2G36720.2 24.138 464 244 11 143 540 557 978 2.32e-35 142
MsaG016986 AT2G27980.1 25.957 470 236 13 143 542 637 1064 1.04e-30 127

Find 99 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATACTTTCTTTGAATTTC+AGG 0.141944 3:+104507761 MsaT016986.1:CDS
ACATGTTCTGTTTGTTGTTT+TGG 0.157762 3:+104506877 MsaT016986.1:CDS
AGATCATTCCCAAGCTTATT+TGG 0.196412 3:-104507249 None:intergenic
GTGGCAACCATAAGGATTTA+TGG 0.239122 3:+104507525 MsaT016986.1:CDS
TGGTTTCTATACTGCGATTA+TGG 0.240807 3:+104507479 MsaT016986.1:CDS
TGCAAATTCTTGTTTGCGTT+TGG 0.242204 3:-104507031 None:intergenic
ACCATCCAAAAGTATCTTCT+TGG 0.296021 3:+104506708 MsaT016986.1:CDS
GTTGATAAAGGATGGAGTTT+TGG 0.297915 3:+104506540 MsaT016986.1:CDS
GTCTTCCAAGAAGATACTTT+TGG 0.305890 3:-104506713 None:intergenic
ACAAGCATGAGCCTCAAATT+TGG 0.327395 3:-104506671 None:intergenic
TCGTTCCACTCTGATTGTTT+AGG 0.327474 3:+104506934 MsaT016986.1:CDS
CTAAAGAGGGAAGGTATAAG+AGG 0.337184 3:+104506505 MsaT016986.1:CDS
ACAAGAGATACTCCCTCTTT+TGG 0.339052 3:-104506605 None:intergenic
CGGAACTTCATTGTTGGACT+TGG 0.361651 3:+104506735 MsaT016986.1:CDS
GTTTCTAAAGCCTCTAGTTC+CGG 0.368804 3:+104506358 MsaT016986.1:CDS
GCAAATTCTTGTTTGCGTTT+GGG 0.380503 3:-104507030 None:intergenic
CAGACCATCCGGATCTCGTT+TGG 0.386226 3:-104506959 None:intergenic
CCAAGTGTCTATAGCATCCT+TGG 0.387385 3:-104507682 None:intergenic
GGAACGGATAAATCAACTTC+TGG 0.396861 3:+104506331 MsaT016986.1:CDS
ACATGTTCCCACAAACTTCA+TGG 0.397494 3:-104507197 None:intergenic
ATCAGAAGTTTCTAATTTAG+TGG 0.404951 3:+104506459 MsaT016986.1:CDS
ATTCACTCTCACCAAATTTG+AGG 0.418669 3:+104506660 MsaT016986.1:CDS
TGTGTAAAGGCAACAAGAAT+TGG 0.422575 3:+104507114 MsaT016986.1:CDS
CATAAGGATTTATGGTCAAA+AGG 0.428606 3:+104507533 MsaT016986.1:CDS
CAAACGAGATCCGGATGGTC+TGG 0.433972 3:+104506960 MsaT016986.1:CDS
AGTTGATTAACTTAGGAGTT+GGG 0.439665 3:+104507640 MsaT016986.1:CDS
GAGACACTTTCTTTGTTAAG+TGG 0.443344 3:-104507804 None:intergenic
AGACCATCCGGATCTCGTTT+GGG 0.445042 3:-104506958 None:intergenic
AAGAAACGTTTGAACTTTCG+TGG 0.445092 3:+104507459 MsaT016986.1:CDS
TTGTAATGCTGAAGCAAAAT+CGG 0.448060 3:+104506804 MsaT016986.1:CDS
TTTAGGTCCCAAACGAGATC+CGG 0.450042 3:+104506951 MsaT016986.1:CDS
ATGTGACTAGAAACTTCATT+TGG 0.453838 3:-104507141 None:intergenic
GGAAGACGGAACTTCATTGT+TGG 0.455884 3:+104506729 MsaT016986.1:CDS
TCTGAGCTCAGCCAATCAAA+AGG 0.457877 3:+104506774 MsaT016986.1:CDS
ATTGACAATGTTACCAAAAG+AGG 0.459673 3:+104506592 MsaT016986.1:CDS
GAAGTGTTCTCAGTTGATAA+AGG 0.461389 3:+104506528 MsaT016986.1:CDS
CGTAAATTGACTGTGGCTCT+TGG 0.463118 3:+104507348 MsaT016986.1:CDS
GAGGAACAGTTGATTAACTT+AGG 0.464976 3:+104507633 MsaT016986.1:CDS
GGTGTGCTGCGTGAGAGTTT+TGG 0.469338 3:+104507369 MsaT016986.1:CDS
TGTTGTTGTTGTTCCTTCCT+CGG 0.473116 3:-104506251 None:intergenic
CTGAGCTCAGCCAATCAAAA+GGG 0.474959 3:+104506775 MsaT016986.1:CDS
CTAGGAATACCAAATAAGCT+TGG 0.478097 3:+104507240 MsaT016986.1:CDS
TATACTGCGATTATGGAGAA+AGG 0.478537 3:+104507486 MsaT016986.1:CDS
CCGTTCCCTCAGATTCTCTC+AGG 0.480436 3:-104506315 None:intergenic
TAGGAATACCAAATAAGCTT+GGG 0.480908 3:+104507241 MsaT016986.1:CDS
ATACTGCGATTATGGAGAAA+GGG 0.484197 3:+104507487 MsaT016986.1:CDS
ATTTCACTTGGGGTGTGTAA+AGG 0.484386 3:+104507101 MsaT016986.1:CDS
GTTTCTAATTTAGTGGGTAG+TGG 0.488815 3:+104506466 MsaT016986.1:CDS
CAGTTGATTAACTTAGGAGT+TGG 0.492298 3:+104507639 MsaT016986.1:CDS
TATAATGTGAGTTGTGATGA+TGG 0.496882 3:+104507291 MsaT016986.1:CDS
AGCTCAGAGCTTTCATTCGA+CGG 0.500191 3:-104506759 None:intergenic
TAACTTAGGAGTTGGGAGCT+TGG 0.501005 3:+104507647 MsaT016986.1:CDS
AGCTTGGGAATGATCTAACT+TGG 0.501787 3:+104507256 MsaT016986.1:CDS
GGATAAATCAACTTCTGGTA+AGG 0.504650 3:+104506336 MsaT016986.1:CDS
AAAGAGGGAAAGTACTAAAG+AGG 0.506275 3:+104506491 MsaT016986.1:CDS
TGAGTTCTGTGGCAACCATA+AGG 0.512428 3:+104507517 MsaT016986.1:CDS
CGGATGGTCTGGATGGTACA+TGG 0.516273 3:+104506971 MsaT016986.1:CDS
AAGAGGGAAAGTACTAAAGA+GGG 0.517147 3:+104506492 MsaT016986.1:CDS
AATGTGCCGTTTGTTGATGA+AGG 0.520351 3:+104507605 MsaT016986.1:CDS
CCAAGGATGCTATAGACACT+TGG 0.526403 3:+104507682 MsaT016986.1:CDS
TCAGAAGTTTCTAATTTAGT+GGG 0.541548 3:+104506460 MsaT016986.1:CDS
TAAAGAGGGAAGGTATAAGA+GGG 0.542556 3:+104506506 MsaT016986.1:CDS
CATGTACCATCCAGACCATC+CGG 0.542947 3:-104506970 None:intergenic
CAATCAGAGTGGAACGAAGA+AGG 0.546313 3:-104506928 None:intergenic
ATGTGAACGAAAATTTCACT+TGG 0.549257 3:+104507089 MsaT016986.1:CDS
TGTTCTCAGTTGATAAAGGA+TGG 0.550925 3:+104506532 MsaT016986.1:CDS
TTAGTGGGTAGTGGTAAAAG+AGG 0.552498 3:+104506475 MsaT016986.1:CDS
CGAGATCCGGATGGTCTGGA+TGG 0.554408 3:+104506964 MsaT016986.1:CDS
CAAGCCCCTTCATCAACAAA+CGG 0.563396 3:-104507611 None:intergenic
AAAAGTATCTTCTTGGAAGA+CGG 0.564085 3:+104506715 MsaT016986.1:CDS
TGTGAACGAAAATTTCACTT+GGG 0.566723 3:+104507090 MsaT016986.1:CDS
AGATCGCCTGAGAGAATCTG+AGG 0.577144 3:+104506309 MsaT016986.1:CDS
CCTGAGAGAATCTGAGGGAA+CGG 0.579608 3:+104506315 MsaT016986.1:CDS
GGTATCAAGATCAACTTCAA+AGG 0.591691 3:+104506408 MsaT016986.1:CDS
ATGTGCCGTTTGTTGATGAA+GGG 0.591926 3:+104507606 MsaT016986.1:CDS
TTTAACAGAACCGGAACTAG+AGG 0.594122 3:-104506368 None:intergenic
CGACAGAGAGAATCCGAGGA+AGG 0.596626 3:+104506238 MsaT016986.1:CDS
TTATGTCTAGAGAAACTACT+AGG 0.598338 3:+104507222 MsaT016986.1:CDS
AAAGCGACAGAGAGAATCCG+AGG 0.599141 3:+104506234 MsaT016986.1:CDS
GGGAAAGTACTAAAGAGGGA+AGG 0.603607 3:+104506496 MsaT016986.1:CDS
TAGTGGGTAGTGGTAAAAGA+GGG 0.607578 3:+104506476 MsaT016986.1:CDS
TACTGCGATTATGGAGAAAG+GGG 0.609394 3:+104507488 MsaT016986.1:CDS
CATATTCTACAACAGCAACT+CGG 0.614325 3:-104507000 None:intergenic
TGTGCCGTTTGTTGATGAAG+GGG 0.619488 3:+104507607 MsaT016986.1:CDS
TTGACAATGTTACCAAAAGA+GGG 0.620789 3:+104506593 MsaT016986.1:CDS
AGTGTCTATAGCATCCTTGG+AGG 0.622116 3:-104507679 None:intergenic
TTTGTTGATGAAGGGGCTTG+AGG 0.622358 3:+104507614 MsaT016986.1:CDS
GTGAACGAAAATTTCACTTG+GGG 0.624887 3:+104507091 MsaT016986.1:CDS
AAATGAAGTTTCTAGTCACA+TGG 0.625461 3:+104507143 MsaT016986.1:CDS
AGAGGGAGTATCTCTTGTGA+AGG 0.627844 3:+104506610 MsaT016986.1:CDS
TGAGCTCAGCCAATCAAAAG+GGG 0.629047 3:+104506776 MsaT016986.1:CDS
CTGATGAGGAGTTACATCAA+AGG 0.630815 3:+104507322 MsaT016986.1:CDS
GGTGACTTAATATTATGTGA+TGG 0.647953 3:+104506901 MsaT016986.1:CDS
GATCGCCTGAGAGAATCTGA+GGG 0.652065 3:+104506310 MsaT016986.1:CDS
GGTCCCAAACGAGATCCGGA+TGG 0.671675 3:+104506955 MsaT016986.1:CDS
TGGTAACATTGTCAATACCA+CGG 0.676702 3:-104506585 None:intergenic
ACTGCGATTATGGAGAAAGG+GGG 0.694924 3:+104507489 MsaT016986.1:CDS
AAGGAAGCGTAAATTGACTG+TGG 0.704717 3:+104507341 MsaT016986.1:CDS
TGGGACCTAAACAATCAGAG+TGG 0.741486 3:-104506939 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 104506205 104507836 104506205 ID=MsaG016986
Chr3 mRNA 104506205 104507836 104506205 ID=MsaT016986.1;Parent=MsaG016986
Chr3 exon 104506205 104507836 104506205 ID=MsaT016986.1.exon1;Parent=MsaT016986.1
Chr3 CDS 104506205 104507836 104506205 ID=cds.MsaT016986.1;Parent=MsaT016986.1
Gene Sequence

>MsaT016986.1

ATGACTTCTCTGTCTACATTACAGTCAAAAAAGCGACAGAGAGAATCCGAGGAAGGAACAACAACAACAACAACAACAATTTCTTCATCTCCATTACAGTCAAAAGATCGCCTGAGAGAATCTGAGGGAACGGATAAATCAACTTCTGGTAAGGTTTCTAAAGCCTCTAGTTCCGGTTCTGTTAAAAAAGCTACACTAACAACGGTATCAAGATCAACTTCAAAGGAAAATGAGAAACATGTGAGTCAATCTGAATCAGAAGTTTCTAATTTAGTGGGTAGTGGTAAAAGAGGGAAAGTACTAAAGAGGGAAGGTATAAGAGGGAAGTGTTCTCAGTTGATAAAGGATGGAGTTTTGGTTTCTGGGACTATTGTTTTCTGCCGTGGTATTGACAATGTTACCAAAAGAGGGAGTATCTCTTGTGAAGGTATAGTTTGTGATTGTTGTCATGTTAAATTCACTCTCACCAAATTTGAGGCTCATGCTTGTTGTACAAGACGTAGACCATCCAAAAGTATCTTCTTGGAAGACGGAACTTCATTGTTGGACTTGGACCGTCGAATGAAAGCTCTGAGCTCAGCCAATCAAAAGGGGAATGATTGTAATGCTGAAGCAAAATCGGAAGCAGCGAATAGTTGTGTTGCTGAAGAAAAGTCTCATGAAAATAATGATACATGTTCTGTTTGTTGTTTTGGGGGTGACTTAATATTATGTGATGGATGTCCTTCTTCGTTCCACTCTGATTGTTTAGGTCCCAAACGAGATCCGGATGGTCTGGATGGTACATGGTTATGTCCGAGTTGCTGTTGTAGAATATGTTGTCAACCCAAACGCAAACAAGAATTTGCAAATGATATTGATGACGATATTCTTGCTTGTGTTCAATGTGAACGAAAATTTCACTTGGGGTGTGTAAAGGCAACAAGAATTGGACAACCAAATGAAGTTTCTAGTCACATGGACAACATTATTGAAAAAAATAATTGGTTTTGCCATGAAGTTTGTGGGAACATGTTCTTATGTCTAGAGAAACTACTAGGAATACCAAATAAGCTTGGGAATGATCTAACTTGGACATTGTTGAAGTATAATGTGAGTTGTGATGATGGAGATTTTGCTGATGAGGAGTTACATCAAAGGAAGCGTAAATTGACTGTGGCTCTTGGTGTGCTGCGTGAGAGTTTTGGTGAAACTATTGATCCTTTATCTAAAAAAGATTTGATTGAAGATGTTGTGTTTAGTAGATCCTCAGAAAAGAAACGTTTGAACTTTCGTGGTTTCTATACTGCGATTATGGAGAAAGGGGGTAAAGTGAGTTCTGTGGCAACCATAAGGATTTATGGTCAAAAGGTTGCTGAGATTGTTTTCATGGCCACCAAAAAAAAATATCGAAGACAAGGAATGTGCCGTTTGTTGATGAAGGGGCTTGAGGAACAGTTGATTAACTTAGGAGTTGGGAGCTTGGTTTTGCATTCCTCCAAGGATGCTATAGACACTTGGAAAAAATCATTTCATTTTGTTGAGATGACGAATGAAGACAAGTGTAAATTTGTTCATTATACTTTCTTTGAATTTCAGGACACTATCATGTGTCTTAAGCCACTTAACAAAGAAAGTGTCTCAAGTCACTGA

Protein sequence

>MsaT016986.1

MTSLSTLQSKKRQRESEEGTTTTTTTISSSPLQSKDRLRESEGTDKSTSGKVSKASSSGSVKKATLTTVSRSTSKENEKHVSQSESEVSNLVGSGKRGKVLKREGIRGKCSQLIKDGVLVSGTIVFCRGIDNVTKRGSISCEGIVCDCCHVKFTLTKFEAHACCTRRRPSKSIFLEDGTSLLDLDRRMKALSSANQKGNDCNAEAKSEAANSCVAEEKSHENNDTCSVCCFGGDLILCDGCPSSFHSDCLGPKRDPDGLDGTWLCPSCCCRICCQPKRKQEFANDIDDDILACVQCERKFHLGCVKATRIGQPNEVSSHMDNIIEKNNWFCHEVCGNMFLCLEKLLGIPNKLGNDLTWTLLKYNVSCDDGDFADEELHQRKRKLTVALGVLRESFGETIDPLSKKDLIEDVVFSRSSEKKRLNFRGFYTAIMEKGGKVSSVATIRIYGQKVAEIVFMATKKKYRRQGMCRLLMKGLEEQLINLGVGSLVLHSSKDAIDTWKKSFHFVEMTNEDKCKFVHYTFFEFQDTIMCLKPLNKESVSSH*