AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG021197

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG021197 MtrunA17_Chr4g0036071 92.843 517 20 4 1 511 1 506 0.0 940
MsaG021197 MtrunA17_Chr1g0156051 47.047 491 172 18 47 483 46 502 1.59e-91 290
MsaG021197 MtrunA17_Chr2g0329551 45.113 266 89 8 215 474 109 323 2.71e-49 175
MsaG021197 MtrunA17_Chr3g0107491 68.841 138 34 1 353 490 162 290 3.74e-49 173
MsaG021197 MtrunA17_Chr6g0463571 52.093 215 93 5 287 498 76 283 5.62e-49 171
MsaG021197 MtrunA17_Chr5g0432701 74.561 114 29 0 353 466 144 257 1.50e-48 171
MsaG021197 MtrunA17_Chr3g0128781 63.768 138 42 1 329 466 77 206 4.57e-47 166
MsaG021197 MtrunA17_Chr2g0316551 49.474 95 48 0 366 460 206 300 1.37e-20 93.2
MsaG021197 MtrunA17_Chr2g0325131 49.474 95 48 0 366 460 189 283 5.42e-20 91.3
MsaG021197 MtrunA17_Chr4g0040891 37.410 139 64 2 322 460 171 286 1.67e-19 89.7
MsaG021197 MtrunA17_Chr2g0306581 70.690 58 17 0 356 413 1 58 2.62e-19 84.0
MsaG021197 MtrunA17_Chr1g0202051 37.762 143 79 4 329 465 83 221 1.32e-13 71.2
MsaG021197 MtrunA17_Chr8g0380611 37.705 122 70 2 339 460 206 321 5.97e-12 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG021197 AT4G38900.2 58.140 516 139 25 19 489 29 512 6.14e-159 463
MsaG021197 AT4G38900.3 58.140 516 139 25 19 489 29 512 6.14e-159 463
MsaG021197 AT4G38900.1 57.471 522 139 26 19 489 29 518 4.20e-156 456
MsaG021197 AT2G21230.4 52.484 463 159 17 87 507 72 515 9.07e-124 372
MsaG021197 AT2G21230.1 52.484 463 159 17 87 507 72 515 9.07e-124 372
MsaG021197 AT2G21230.3 51.599 469 160 18 87 507 72 521 1.94e-120 364
MsaG021197 AT2G21230.2 54.135 399 128 16 87 449 72 451 1.08e-111 339
MsaG021197 AT2G40620.1 70.968 124 36 0 343 466 123 246 2.55e-49 174
MsaG021197 AT1G06850.1 66.418 134 43 1 339 470 117 250 1.11e-48 171
MsaG021197 AT2G31370.5 43.820 267 100 7 200 466 83 299 2.87e-48 171
MsaG021197 AT2G31370.2 43.820 267 100 7 200 466 83 299 5.77e-48 171
MsaG021197 AT2G31370.4 43.820 267 100 7 200 466 83 299 5.77e-48 171
MsaG021197 AT2G31370.1 43.820 267 100 7 200 466 83 299 5.77e-48 171
MsaG021197 AT2G31370.7 43.820 267 100 7 200 466 83 299 5.77e-48 171
MsaG021197 AT2G31370.3 43.820 267 100 7 200 466 83 299 5.77e-48 171
MsaG021197 AT2G31370.6 43.820 267 100 7 200 466 83 299 5.77e-48 171
MsaG021197 AT1G06070.1 66.412 131 42 1 343 471 185 315 8.01e-47 169
MsaG021197 AT1G43700.1 49.327 223 94 7 294 501 109 327 1.80e-45 162
MsaG021197 AT2G12940.1 42.077 183 98 3 280 462 68 242 1.89e-36 137
MsaG021197 AT2G13150.1 41.341 179 97 3 282 460 71 241 4.91e-36 135
MsaG021197 AT2G12900.1 38.750 160 86 3 312 463 56 211 9.04e-30 118
MsaG021197 AT1G06850.2 65.517 87 28 1 339 423 117 203 1.45e-25 105
MsaG021197 AT3G58120.1 48.421 95 49 0 366 460 200 294 4.93e-20 91.7
MsaG021197 AT2G42380.2 48.421 95 49 0 366 460 184 278 1.28e-19 90.1
MsaG021197 AT2G21235.1 37.736 159 79 4 305 460 309 450 8.17e-17 84.0
MsaG021197 AT2G42380.5 47.619 84 44 0 366 449 184 267 9.95e-17 80.9
MsaG021197 AT3G58120.2 47.561 82 43 0 366 447 200 281 4.38e-16 79.3
MsaG021197 AT2G42380.1 44.211 95 42 1 366 460 184 267 3.76e-14 73.9
MsaG021197 AT1G58110.1 42.857 84 48 0 377 460 238 321 7.76e-12 67.4
MsaG021197 AT1G58110.2 42.857 84 48 0 377 460 238 321 7.76e-12 67.4

Find 124 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGGGTTATTTCAGGATAT+TGG 0.231921 4:+63849177 MsaT021197.1:intron
TGCACAACTTACTTTGTTGC+AGG 0.290633 4:+63849303 MsaT021197.1:CDS
ATTTCAGGATATTGGCTAAT+AGG 0.291092 4:+63849185 MsaT021197.1:intron
TGGTGAAAAGGGAAACTAAT+TGG 0.304245 4:+63848548 MsaT021197.1:CDS
GTTGATGTCACCTGTTAATT+CGG 0.324317 4:+63848951 MsaT021197.1:CDS
GGCATTTGCGGCCGTGAAAC+CGG 0.329642 4:-63848196 None:intergenic
GATGCTGCTGATGCTGTTGT+TGG 0.356529 4:-63852222 None:intergenic
ATCTGAGAGTAAGGTGAAAT+AGG 0.358249 4:-63848160 None:intergenic
TGCTGTTGTTGGAACATCAT+AGG 0.362730 4:-63852211 None:intergenic
GGAACTTCAACTCACTATTC+TGG 0.380487 4:-63849621 None:intergenic
GGGATCTGGTGTGGGTGTGA+TGG 0.386572 4:-63848136 None:intergenic
GCCAGAGTTGAAGAAAATTA+TGG 0.386981 4:+63849029 MsaT021197.1:CDS
TGGTGATAATCGCGATGATT+TGG 0.392741 4:+63848696 MsaT021197.1:CDS
TTGAAGATGCCTCCTTCGCC+TGG 0.396610 4:+63848925 MsaT021197.1:CDS
AAAGAATGAGTTAAAGCAAT+AGG 0.398703 4:+63852276 MsaT021197.1:CDS
CTAATTCGTCGGTGGTGAAA+AGG 0.403499 4:+63848536 MsaT021197.1:CDS
TTGCTACAGCTGAGCTGAAT+GGG 0.408125 4:+63852143 MsaT021197.1:CDS
TTCCCATCACCCGAATTAAC+AGG 0.411462 4:-63848961 None:intergenic
TCTAACAGTGATATTCCGTT+TGG 0.413476 4:+63848448 MsaT021197.1:CDS
TTGATGTCACCTGTTAATTC+GGG 0.415089 4:+63848952 MsaT021197.1:CDS
GAAGGGAATAAGAGAAGTGC+AGG 0.419487 4:+63848817 MsaT021197.1:CDS
CCTGTTGTTCCATGGATTGA+AGG 0.422833 4:-63849645 None:intergenic
GATAGTATGCAGAGGAGGGA+AGG 0.429594 4:+63848799 MsaT021197.1:CDS
TTTGGGAATGGTGAGTTTAG+TGG 0.431644 4:+63849006 MsaT021197.1:CDS
CCTTCAATCCATGGAACAAC+AGG 0.431813 4:+63849645 MsaT021197.1:CDS
CAGCACCTCTTAGCCCGCTT+CGG 0.433321 4:-63849087 None:intergenic
ATCTGGTGTGGGTGTGATGG+TGG 0.439152 4:-63848133 None:intergenic
AAATAGGTGGGATCTGGTGT+GGG 0.439432 4:-63848144 None:intergenic
CTTTAACTCATTCTTTGAGT+TGG 0.442907 4:-63852269 None:intergenic
ACAACAAATGAACAATCATA+TGG 0.450801 4:+63848024 MsaT021197.1:CDS
CCGCCGTTGATTCCGCTTCG+AGG 0.450965 4:+63848496 MsaT021197.1:CDS
GTACTATGCGACGGCATTTG+CGG 0.455092 4:-63848208 None:intergenic
TGCGGAATCATGCAGTTAGA+AGG 0.459177 4:-63852175 None:intergenic
AGAGTAGTGTTAATGAGAGT+GGG 0.468643 4:+63848776 MsaT021197.1:CDS
GTGGGGATAGTATGCAGAGG+AGG 0.468795 4:+63848794 MsaT021197.1:CDS
AAGGTGAAATAGGTGGGATC+TGG 0.472913 4:-63848150 None:intergenic
GAAGTTCCGCCTTCAATCCA+TGG 0.476046 4:+63849636 MsaT021197.1:CDS
TAATTCGTCGGTGGTGAAAA+GGG 0.477108 4:+63848537 MsaT021197.1:CDS
TCATCCACAACTTCACCTTC+CGG 0.477852 4:-63848607 None:intergenic
GAAATAGGTGGGATCTGGTG+TGG 0.483403 4:-63848145 None:intergenic
TTTAGTTTGGAGTTTGGGAA+TGG 0.489226 4:+63848994 MsaT021197.1:CDS
ATAGTATGCAGAGGAGGGAA+GGG 0.491140 4:+63848800 MsaT021197.1:CDS
TGATTATTCATCTGAGAGTA+AGG 0.492306 4:-63848169 None:intergenic
GAGAGTAGTGTTAATGAGAG+TGG 0.492697 4:+63848775 MsaT021197.1:CDS
GGTGAAAAGGGAAACTAATT+GGG 0.496452 4:+63848549 MsaT021197.1:CDS
GCGAGTGGAACGAAGACTAA+TGG 0.498624 4:+63848727 MsaT021197.1:CDS
GGATCATGCTGACGTTTCCA+TGG 0.501467 4:+63848339 MsaT021197.1:CDS
ATTGCTACAGCTGAGCTGAA+TGG 0.502115 4:+63852142 MsaT021197.1:CDS
CGTTGATTCCGCTTCGAGGA+AGG 0.502885 4:+63848500 MsaT021197.1:CDS
TCACCTGTTAATTCGGGTGA+TGG 0.506440 4:+63848958 MsaT021197.1:CDS
GCATTTGCGGCCGTGAAACC+GGG 0.507657 4:-63848195 None:intergenic
TTGGGAATGGTGAGTTTAGT+GGG 0.509815 4:+63849007 MsaT021197.1:CDS
TGCTATGGCTGATCCGAAGC+GGG 0.511052 4:+63849074 MsaT021197.1:CDS
AGCAGAAATCAAAGAGGAGG+TGG 0.514151 4:+63848106 MsaT021197.1:CDS
TGGGGATAGTATGCAGAGGA+GGG 0.518255 4:+63848795 MsaT021197.1:CDS
CTGATCCGAAGCGGGCTAAG+AGG 0.529672 4:+63849082 MsaT021197.1:CDS
GGGAATAAGAGAAGTGCAGG+AGG 0.532585 4:+63848820 MsaT021197.1:CDS
ATAATCAGATCCCGGTTTCA+CGG 0.535436 4:+63848185 MsaT021197.1:CDS
CTGAACCTTGTGTTCTAGCT+CGG 0.538171 4:-63849251 None:intergenic
GTTGATTCCGCTTCGAGGAA+GGG 0.544219 4:+63848501 MsaT021197.1:CDS
AGTGACGTCACGATCTTCCA+TGG 0.547547 4:-63848356 None:intergenic
AATCTTCAGTCTTTGAACTT+CGG 0.549225 4:-63852122 None:intergenic
AAGAAATCGTTGTCGCCGGA+AGG 0.549807 4:+63848592 MsaT021197.1:CDS
CACCTGTTAATTCGGGTGAT+GGG 0.550364 4:+63848959 MsaT021197.1:CDS
AGATGCCTCCTTCGCCTGGA+GGG 0.550640 4:+63848929 MsaT021197.1:CDS
GAAGGGTTTCTAGCAGCAAA+CGG 0.555470 4:-63848397 None:intergenic
GCTGTTGTTGGAACATCATA+GGG 0.558278 4:-63852210 None:intergenic
CATCAACAACAGCAGCAGAA+TGG 0.558598 4:+63852241 MsaT021197.1:CDS
GAAGATTCGCGAAACGTGCA+AGG 0.565171 4:-63848307 None:intergenic
GACATCAACCCTCCAGGCGA+AGG 0.565228 4:-63848937 None:intergenic
GAGTAGTGTTAATGAGAGTG+GGG 0.567227 4:+63848777 MsaT021197.1:CDS
CTAGCAGCAAACGGAGGTAA+CGG 0.571775 4:-63848388 None:intergenic
ACAGGTGACATCAACCCTCC+AGG 0.578570 4:-63848943 None:intergenic
TTGTGATGATGCATTAAAGT+GGG 0.579925 4:-63848062 None:intergenic
AAGATGCCTCCTTCGCCTGG+AGG 0.581524 4:+63848928 MsaT021197.1:CDS
TGAGAGTAAGGTGAAATAGG+TGG 0.582251 4:-63848157 None:intergenic
CTTCCTCGAAGCGGAATCAA+CGG 0.584470 4:-63848499 None:intergenic
CATTTCCGAGCTAGAACACA+AGG 0.584550 4:+63849246 MsaT021197.1:CDS
TGATGCATTAAAGTGGGGTA+TGG 0.584615 4:-63848056 None:intergenic
ACATCATAGAAGTGTTTCGA+TGG 0.584942 4:+63848864 MsaT021197.1:CDS
GAGAGTAAGGTGAAATAGGT+GGG 0.588611 4:-63848156 None:intergenic
GCAACTTCCCTTCCTCGAAG+CGG 0.591727 4:-63848508 None:intergenic
CTTCTATGATGTCTCGTAGT+CGG 0.593410 4:-63848853 None:intergenic
ATCAACCCTCCAGGCGAAGG+AGG 0.593463 4:-63848934 None:intergenic
AACGTGCAAGGGCTGAGAGG+CGG 0.597136 4:-63848295 None:intergenic
GGAGAAGAAATCGTTGTCGC+CGG 0.600332 4:+63848588 MsaT021197.1:CDS
AAAACAGTAGAAAATCCAAA+CGG 0.603502 4:-63848463 None:intergenic
ATTGTGATGATGCATTAAAG+TGG 0.604887 4:-63848063 None:intergenic
TCAGATGAATAATCAGATCC+CGG 0.607400 4:+63848177 MsaT021197.1:CDS
AGAGTGGGGATAGTATGCAG+AGG 0.609195 4:+63848791 MsaT021197.1:CDS
GTCAGCATGATCCGACGTGG+AGG 0.611432 4:-63848329 None:intergenic
AGTAGCAGAAATCAAAGAGG+AGG 0.611642 4:+63848103 MsaT021197.1:CDS
TTCGGGTGATGGGAATTCAG+CGG 0.615083 4:+63848969 MsaT021197.1:CDS
GATCGTGTGTGGGAAGGTGT+AGG 0.618822 4:-63848235 None:intergenic
AAAACTTGCTGAGATTGCTA+TGG 0.624523 4:+63849059 MsaT021197.1:CDS
GATTGAAAGAAATACCATCT+CGG 0.625004 4:-63849675 None:intergenic
TTGGGAACATAGTAATGTAG+AGG 0.627338 4:+63848567 MsaT021197.1:CDS
GAGAGTGATCGTGTGTGGGA+AGG 0.627896 4:-63848241 None:intergenic
GATTTGGACAGTAGAGCGAG+TGG 0.629856 4:+63848712 MsaT021197.1:CDS
TTGTCTAATAGCTCTGAATG+AGG 0.632805 4:+63852090 MsaT021197.1:intron
GTTGAGAGAGTGATCGTGTG+TGG 0.632845 4:-63848246 None:intergenic
TGTATGCAGAGAGATTCAGT+TGG 0.633937 4:+63849589 MsaT021197.1:intron
TACCGCCGAGAAAATCTCAC+CGG 0.639423 4:+63848422 MsaT021197.1:CDS
TGCTACAGCTGAGCTGAATG+GGG 0.641201 4:+63852144 MsaT021197.1:CDS
AGTTGCTAAACCTAATTCGT+CGG 0.641686 4:+63848525 MsaT021197.1:CDS
GTTAGTAGCAGAAATCAAAG+AGG 0.645697 4:+63848100 MsaT021197.1:CDS
GTTGTTCCATGGATTGAAGG+CGG 0.649555 4:-63849642 None:intergenic
TGCTAAACCTAATTCGTCGG+TGG 0.650048 4:+63848528 MsaT021197.1:CDS
CGAAACGTGCAAGGGCTGAG+AGG 0.651618 4:-63848298 None:intergenic
GTAGGACTTGTACTATGCGA+CGG 0.653735 4:-63848217 None:intergenic
TTGCTATGGCTGATCCGAAG+CGG 0.654077 4:+63849073 MsaT021197.1:CDS
TCGCGAATCTTCCTCCACGT+CGG 0.657479 4:+63848318 MsaT021197.1:CDS
CAACAGGCAAAACTCCGAGA+TGG 0.660037 4:+63849661 MsaT021197.1:CDS
AAGTTGTGCAGAAAGTGTAG+TGG 0.665732 4:-63849290 None:intergenic
AAGATTCGCGAAACGTGCAA+GGG 0.666107 4:-63848306 None:intergenic
TTGAGAGAGTGATCGTGTGT+GGG 0.674945 4:-63848245 None:intergenic
GTCGCCGGAAGGTGAAGTTG+TGG 0.681642 4:+63848603 MsaT021197.1:CDS
AGTGGAACGAAGACTAATGG+TGG 0.685995 4:+63848730 MsaT021197.1:CDS
ATAGGGTTGACAGAATGTTG+CGG 0.688253 4:-63852193 None:intergenic
AACGTCAGCATGATCCGACG+TGG 0.690918 4:-63848332 None:intergenic
GAATATCACTGTTAGAACGC+CGG 0.693141 4:-63848441 None:intergenic
CCTCGAAGCGGAATCAACGG+CGG 0.693770 4:-63848496 None:intergenic
GGGTTTCTAGCAGCAAACGG+AGG 0.701318 4:-63848394 None:intergenic
TGTGATGATGCATTAAAGTG+GGG 0.705204 4:-63848061 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 63847983 63852297 63847983 ID=MsaG021197
Chr4 mRNA 63847983 63852297 63847983 ID=MsaT021197.1;Parent=MsaG021197
Chr4 exon 63847983 63849103 63847983 ID=MsaT021197.1.exon1;Parent=MsaT021197.1
Chr4 CDS 63847983 63849103 63847983 ID=cds.MsaT021197.1;Parent=MsaT021197.1
Chr4 exon 63849192 63849324 63849192 ID=MsaT021197.1.exon2;Parent=MsaT021197.1
Chr4 CDS 63849192 63849324 63849192 ID=cds.MsaT021197.1;Parent=MsaT021197.1
Chr4 exon 63849598 63849682 63849598 ID=MsaT021197.1.exon3;Parent=MsaT021197.1
Chr4 CDS 63849598 63849682 63849598 ID=cds.MsaT021197.1;Parent=MsaT021197.1
Chr4 exon 63852101 63852297 63852101 ID=MsaT021197.1.exon4;Parent=MsaT021197.1
Chr4 CDS 63852101 63852297 63852101 ID=cds.MsaT021197.1;Parent=MsaT021197.1
Gene Sequence

>MsaT021197.1

ATGGAAGATAGTGAAGCAGCTTCATCTTTCATGAAACAACAACAACAAATGAACAATCATATGGAACAATTAACCATACCCCACTTTAATGCATCATCACAATCACAAATGCGAACTGTTAGTAGCAGAAATCAAAGAGGAGGTGGTATACCACCATCACACCCACACCAGATCCCACCTATTTCACCTTACTCTCAGATGAATAATCAGATCCCGGTTTCACGGCCGCAAATGCCGTCGCATAGTACAAGTCCTACACCTTCCCACACACGATCACTCTCTCAACCGTCTTTTTTCTCGCTCGACTCTCTTCCGCCTCTCAGCCCTTGCACGTTTCGCGAATCTTCCTCCACGTCGGATCATGCTGACGTTTCCATGGAAGATCGTGACGTCACTTCTCATTCACCGTTACCTCCGTTTGCTGCTAGAAACCCTTCTTTACCGCCGAGAAAATCTCACCGGCGTTCTAACAGTGATATTCCGTTTGGATTTTCTACTGTTTTGCAGTCTTCGCCGCCGTTGATTCCGCTTCGAGGAAGGGAAGTTGCTAAACCTAATTCGTCGGTGGTGAAAAGGGAAACTAATTGGGAACATAGTAATGTAGAGGAGAAGAAATCGTTGTCGCCGGAAGGTGAAGTTGTGGATGATCTTTTTTCTGCTTATATGAATTTGGATAACATTGATGCAATTAACGATGATAAAAACGCGGCTACTGGTGATAATCGCGATGATTTGGACAGTAGAGCGAGTGGAACGAAGACTAATGGTGGTGATAGTAGTGATAATGAAGCTGAGAGTAGTGTTAATGAGAGTGGGGATAGTATGCAGAGGAGGGAAGGGAATAAGAGAAGTGCAGGAGGTGATATTGCACCGACTACGAGACATCATAGAAGTGTTTCGATGGATAGTTTTATTGGGAAGTTGAATTTCAATGACGAGTCTTTGAAGATGCCTCCTTCGCCTGGAGGGTTGATGTCACCTGTTAATTCGGGTGATGGGAATTCAGCGGCTTTTAGTTTGGAGTTTGGGAATGGTGAGTTTAGTGGGCCAGAGTTGAAGAAAATTATGGCTAATGAAAAACTTGCTGAGATTGCTATGGCTGATCCGAAGCGGGCTAAGAGGATATTGGCTAATAGGCAATCAGCTGCGCGTTCCAAAGAGCGCAAAATGCGATACATTTCCGAGCTAGAACACAAGGTTCAGACTCTGCAGACTGAAGCCACTACACTTTCTGCACAACTTACTTTGTTGCAGAGAGATTCAGTTGGACTCACTAACCAGAATAGTGAGTTGAAGTTCCGCCTTCAATCCATGGAACAACAGGCAAAACTCCGAGATGCTCTGAATGAGGCGCTTACTGCCGAAGTTCAAAGACTGAAGATTGCTACAGCTGAGCTGAATGGGGAGTCACTTCCTTCTAACTGCATGATTCCGCAACATTCTGTCAACCCTATGATGTTCCAACAACAGCATCAGCAGCATCAACAACAGCAGCAGAATGGTAATGCCAACTCAAAGAATGAGTTAAAGCAATAG
Protein sequence

>MsaT021197.1

MEDSEAASSFMKQQQQMNNHMEQLTIPHFNASSQSQMRTVSSRNQRGGGIPPSHPHQIPPISPYSQMNNQIPVSRPQMPSHSTSPTPSHTRSLSQPSFFSLDSLPPLSPCTFRESSSTSDHADVSMEDRDVTSHSPLPPFAARNPSLPPRKSHRRSNSDIPFGFSTVLQSSPPLIPLRGREVAKPNSSVVKRETNWEHSNVEEKKSLSPEGEVVDDLFSAYMNLDNIDAINDDKNAATGDNRDDLDSRASGTKTNGGDSSDNEAESSVNESGDSMQRREGNKRSAGGDIAPTTRHHRSVSMDSFIGKLNFNDESLKMPPSPGGLMSPVNSGDGNSAAFSLEFGNGEFSGPELKKIMANEKLAEIAMADPKRAKRILANRQSAARSKERKMRYISELEHKVQTLQTEATTLSAQLTLLQRDSVGLTNQNSELKFRLQSMEQQAKLRDALNEALTAEVQRLKIATAELNGESLPSNCMIPQHSVNPMMFQQQHQQHQQQQQNGNANSKNELKQ*