AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001740

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001740 MtrunA17_Chr1g0167261 90.986 355 25 1 1 355 1 348 0.0 659
MsaG001740 MtrunA17_Chr1g0166821 78.167 371 62 3 1 355 1 368 0.0 585
MsaG001740 MtrunA17_Chr1g0187571 74.185 368 72 3 1 347 1 366 0.0 554
MsaG001740 MtrunA17_Chr7g0261501 77.982 327 68 3 2 326 1 325 0.0 523
MsaG001740 MtrunA17_Chr1g0183631 79.672 305 60 1 2 306 1 303 0.0 513
MsaG001740 MtrunA17_Chr4g0071031 68.675 332 98 2 2 329 1 330 1.03e-171 485
MsaG001740 MtrunA17_Chr2g0329981 66.286 350 109 3 2 347 1 345 7.36e-171 484
MsaG001740 MtrunA17_Chr8g0342821 70.440 318 89 3 2 319 1 313 2.06e-167 475
MsaG001740 MtrunA17_Chr6g0486611 69.010 313 94 2 2 314 1 310 4.34e-161 457
MsaG001740 MtrunA17_Chr2g0299661 63.158 342 108 3 2 333 1 334 4.53e-161 459
MsaG001740 MtrunA17_Chr8g0390211 62.185 357 116 4 2 344 1 352 4.70e-160 455
MsaG001740 MtrunA17_Chr3g0140071 60.756 344 112 3 2 332 1 334 1.68e-151 433
MsaG001740 MtrunA17_Chr1g0146151 61.661 313 118 1 2 314 1 311 6.52e-144 414
MsaG001740 MtrunA17_Chr7g0214531 36.860 293 164 6 4 280 29 316 7.15e-55 189
MsaG001740 MtrunA17_Chr3g0140431 38.163 283 160 6 4 276 30 307 1.23e-54 189
MsaG001740 MtrunA17_Chr1g0146301 36.396 283 165 6 4 276 116 393 3.88e-52 183
MsaG001740 MtrunA17_Chr1g0213321 36.268 284 165 6 4 276 111 389 1.41e-51 181
MsaG001740 MtrunA17_Chr7g0253211 36.620 284 162 5 10 280 324 602 2.37e-51 183
MsaG001740 MtrunA17_Chr8g0340491 35.915 284 158 7 10 276 128 404 2.42e-47 170
MsaG001740 MtrunA17_Chr5g0405421 27.434 226 144 6 9 225 98 312 1.06e-14 75.1
MsaG001740 MtrunA17_Chr8g0374701 27.948 229 126 8 7 214 122 332 5.13e-12 67.0
MsaG001740 MtrunA17_Chr3g0139371 25.217 230 147 7 9 217 73 298 6.46e-12 66.2
MsaG001740 MtrunA17_Chr3g0116701 24.896 241 141 7 6 217 90 319 1.47e-11 65.5
MsaG001740 MtrunA17_Chr5g0444171 26.126 222 142 6 10 222 92 300 2.38e-11 65.1
MsaG001740 MtrunA17_Chr3g0127571 27.313 227 127 9 7 214 135 342 2.60e-11 64.7
MsaG001740 MtrunA17_Chr7g0267751 26.728 217 137 8 10 217 135 338 4.27e-11 64.3
MsaG001740 MtrunA17_Chr2g0284031 25.726 241 129 10 8 225 29 242 5.19e-11 63.9
MsaG001740 MtrunA17_Chr4g0045261 26.991 226 129 8 7 214 134 341 6.99e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001740 AT3G23340.1 80.122 327 62 2 2 327 1 325 0.0 543
MsaG001740 AT4G14340.1 70.350 371 85 5 2 349 7 375 0.0 524
MsaG001740 AT4G14340.2 75.684 329 77 2 2 329 7 333 0.0 518
MsaG001740 AT1G03930.1 74.030 335 79 2 2 330 1 333 0.0 515
MsaG001740 AT3G23340.2 77.064 327 58 3 2 327 1 311 0.0 511
MsaG001740 AT4G28540.1 69.382 356 97 3 2 347 5 358 0.0 510
MsaG001740 AT5G44100.1 74.328 335 77 3 2 330 1 332 1.41e-180 509
MsaG001740 AT5G44100.2 74.328 335 77 3 2 330 1 332 1.41e-180 509
MsaG001740 AT5G43320.1 73.178 343 84 4 2 338 1 341 1.52e-179 506
MsaG001740 AT5G43320.2 74.107 336 80 3 2 332 1 334 3.07e-178 499
MsaG001740 AT5G43320.3 74.107 336 80 3 2 332 1 334 3.07e-178 499
MsaG001740 AT1G04440.1 67.297 370 94 5 2 350 1 364 5.13e-178 502
MsaG001740 AT4G26100.1 67.262 336 104 2 2 333 1 334 3.36e-170 482
MsaG001740 AT2G19470.1 67.155 341 98 3 2 332 1 337 3.72e-169 478
MsaG001740 AT1G72710.1 68.072 332 99 3 2 329 1 329 1.94e-168 478
MsaG001740 AT5G57015.1 70.032 317 92 2 2 317 1 315 1.17e-166 472
MsaG001740 AT4G28880.3 66.774 310 101 1 2 311 1 308 5.71e-156 444
MsaG001740 AT4G28880.2 66.774 310 101 1 2 311 1 308 5.71e-156 444
MsaG001740 AT4G28880.1 66.774 310 101 1 2 311 1 308 5.71e-156 444
MsaG001740 AT4G28880.4 66.774 310 101 1 2 311 1 308 5.71e-156 444
MsaG001740 AT4G28860.2 59.943 352 134 2 2 353 1 345 1.11e-155 442
MsaG001740 AT4G28860.1 59.943 352 134 2 2 353 1 345 5.41e-155 442
MsaG001740 AT4G08800.1 61.745 298 80 3 2 299 1 264 2.65e-131 377
MsaG001740 AT2G25760.2 39.362 282 154 6 10 276 107 386 6.83e-56 194
MsaG001740 AT2G25760.1 39.007 282 152 5 10 276 107 383 1.49e-55 192
MsaG001740 AT3G13670.1 35.495 293 168 6 4 280 129 416 7.68e-52 183
MsaG001740 AT3G03940.1 35.915 284 164 5 10 280 140 418 1.02e-50 180
MsaG001740 AT5G18190.2 35.563 284 165 5 10 280 130 408 1.26e-50 179
MsaG001740 AT5G18190.1 35.563 284 165 5 10 280 130 408 1.26e-50 179
MsaG001740 AT2G17890.1 26.339 224 149 6 9 225 107 321 1.55e-13 72.0
MsaG001740 AT3G50530.1 27.556 225 129 6 7 214 145 352 3.16e-13 71.2
MsaG001740 AT3G50530.2 26.210 248 134 8 7 214 145 383 2.18e-12 68.6
MsaG001740 AT3G53570.1 26.724 232 144 6 9 217 114 342 2.19e-12 68.6
MsaG001740 AT3G53570.4 26.724 232 144 6 9 217 114 342 2.19e-12 68.6
MsaG001740 AT3G53570.2 26.724 232 144 6 9 217 114 342 2.19e-12 68.6
MsaG001740 AT3G53570.3 26.724 232 144 6 9 217 100 328 2.25e-12 68.2
MsaG001740 AT3G53570.5 26.724 232 144 6 9 217 100 328 2.25e-12 68.2
MsaG001740 AT4G32660.2 26.778 239 132 7 9 217 70 295 3.58e-12 67.4
MsaG001740 AT4G32660.3 26.778 239 132 7 9 217 62 287 3.81e-12 67.4
MsaG001740 AT4G32660.1 26.778 239 132 7 9 217 70 295 4.02e-12 67.4
MsaG001740 AT5G39440.1 28.319 226 139 6 10 227 19 229 3.47e-11 64.7
MsaG001740 AT3G49370.1 26.923 234 133 9 8 222 140 354 4.09e-11 64.7

Find 77 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCATTTGGGGAGCTTTATT+TGG 0.240792 1:+25661306 MsaT001740.1:CDS
CTAAATATTGGTACCTCTAT+TGG 0.252438 1:-25664000 None:intergenic
GTGATGGCTGTTGACCTTCT+TGG 0.294544 1:+25662596 MsaT001740.1:CDS
ATATCTTAAGAAACTCTTTC+GGG 0.305643 1:+25664277 MsaT001740.1:CDS
GTTATGATGGATATTGTTAT+TGG 0.306877 1:+25661247 None:intergenic
TTCAAGCTTGGCAGCAAACT+TGG 0.307902 1:+25661277 MsaT001740.1:CDS
CATATCTTAAGAAACTCTTT+CGG 0.313975 1:+25664276 MsaT001740.1:CDS
GCATTTGGGGAGCTTTATTT+GGG 0.341011 1:+25661307 MsaT001740.1:CDS
AGTTTGACTTTGTATTTGAT+TGG 0.343555 1:+25664419 MsaT001740.1:CDS
TTTAAGACTGGTTTCACATT+TGG 0.346834 1:-25664572 None:intergenic
AAACTTGGGAGTGGAGCATT+TGG 0.356250 1:+25661292 MsaT001740.1:CDS
TTCTTAAGATATGAATAATC+AGG 0.358182 1:-25664266 None:intergenic
TTTAACACTCACCTTGGAAT+TGG 0.359788 1:+25663630 MsaT001740.1:CDS
AACTTGGGAGTGGAGCATTT+GGG 0.378231 1:+25661293 MsaT001740.1:CDS
AGAAGAAATATGAATGGATA+AGG 0.378535 1:+25663959 MsaT001740.1:CDS
TCAGGAAGAAATAATGGCTC+TGG 0.388829 1:+25664901 MsaT001740.1:intron
AAAGCCCGAGAACTTTCTAA+TGG 0.388867 1:+25662848 MsaT001740.1:CDS
TGTATGAGTCTAAATTGTAT+AGG 0.392182 1:+25662302 MsaT001740.1:CDS
CAGACTGCAGCATAGGTCTT+TGG 0.407190 1:+25664927 MsaT001740.1:CDS
CAGGTGTACATTATTGACTA+TGG 0.410304 1:+25663255 MsaT001740.1:intron
GAGAACTTTCTAATGGGTTC+AGG 0.413955 1:+25662855 MsaT001740.1:CDS
AGAGGAAGTGGCTCTTAAAC+TGG 0.426091 1:+25661427 MsaT001740.1:CDS
TATGGTCCTGTGTTTAAGAC+TGG 0.431845 1:-25664584 None:intergenic
GTTATAGTCTTCCATGGCAT+GGG 0.446603 1:+25663911 MsaT001740.1:intron
TTAGAACTGGAACCACTTTG+TGG 0.457776 1:-25664457 None:intergenic
AGGGAAAACAAGAATCTCAT+TGG 0.467420 1:+25663588 MsaT001740.1:intron
AAGCCCGAGAACTTTCTAAT+GGG 0.468302 1:+25662849 MsaT001740.1:CDS
ATTTGATTGGACTAAATTGA+AGG 0.470659 1:+25664432 MsaT001740.1:CDS
CGTTCTAATCTCTCTTCATA+TGG 0.470694 1:-25664602 None:intergenic
TGAACCCATTAGAAAGTTCT+CGG 0.471922 1:-25662853 None:intergenic
ACCGCAATGATCGACAATAG+TGG 0.481921 1:-25664232 None:intergenic
TGTTATAGTCTTCCATGGCA+TGG 0.485138 1:+25663910 MsaT001740.1:intron
GAAGAAATATGAATGGATAA+GGG 0.486661 1:+25663960 MsaT001740.1:CDS
TTATATATTATGTACCTGTA+TGG 0.490253 1:-25663321 None:intergenic
ACTCCATACCACTTTATATG+AGG 0.493402 1:-25662557 None:intergenic
TTAAATAAGTCTTCAAGACT+TGG 0.494574 1:-25662620 None:intergenic
TTCAGGCAGCAAGATAAATC+AGG 0.499327 1:+25662872 MsaT001740.1:CDS
CAGGAAGAAATAATGGCTCT+GGG 0.501297 1:+25664902 MsaT001740.1:intron
CCACTTTATATGAGGTATGC+CGG 0.507981 1:-25662549 None:intergenic
CGGGAACTATTCATTAGAGA+AGG 0.512534 1:+25664296 MsaT001740.1:CDS
AAAGAAGCTAACTCCAATAG+AGG 0.515041 1:+25663987 MsaT001740.1:CDS
ATGATGGATATTGTTATTGG+TGG 0.521288 1:+25661250 MsaT001740.1:CDS
CACAAAGGCACATACCATAC+AGG 0.527052 1:+25663307 MsaT001740.1:CDS
GAGAGATTAGAACGGCCTAC+AGG 0.527482 1:+25664611 MsaT001740.1:CDS
AAATTGTATAGGCTTCTTCA+AGG 0.528424 1:+25662313 MsaT001740.1:CDS
AGCTATACTTACTAGTTGAT+CGG 0.530567 1:-25662687 None:intergenic
CTGGGGACAGACTGCAGCAT+AGG 0.535067 1:+25664920 MsaT001740.1:CDS
TCAAGCTTGGCAGCAAACTT+GGG 0.536290 1:+25661278 MsaT001740.1:CDS
CTAAAGAGAAGAAATATGAA+TGG 0.541076 1:+25663953 MsaT001740.1:CDS
ATTGGTGGAAAATTCAAGCT+TGG 0.542077 1:+25661265 MsaT001740.1:CDS
CTTCAAGACTTGGTCCAAGA+AGG 0.548592 1:-25662610 None:intergenic
TGTGAAAACTCAAGAGGAAG+TGG 0.550394 1:+25661415 MsaT001740.1:CDS
TTCATGCCGTGCCCATGCCA+TGG 0.555518 1:-25663922 None:intergenic
CTTGGCAGCAAACTTGGGAG+TGG 0.558158 1:+25661283 MsaT001740.1:CDS
ATACCTCATATAAAGTGGTA+TGG 0.563349 1:+25662554 MsaT001740.1:CDS
GAACCCATTAGAAAGTTCTC+GGG 0.565868 1:-25662852 None:intergenic
CCGGCATACCTCATATAAAG+TGG 0.567709 1:+25662549 MsaT001740.1:CDS
TGCACAACTTACCAATTCCA+AGG 0.568178 1:-25663641 None:intergenic
TTAGACTCATACAGAAGTTG+AGG 0.573846 1:-25662292 None:intergenic
AGAGATGATCTAGAATCGCT+TGG 0.574171 1:+25663784 MsaT001740.1:CDS
ACTTGGGAGTGGAGCATTTG+GGG 0.577875 1:+25661294 MsaT001740.1:CDS
TATAAAGTGGTATGGAGTCG+AGG 0.580298 1:+25662562 MsaT001740.1:CDS
AGTCTTCCATGGCATGGGCA+CGG 0.583186 1:+25663916 MsaT001740.1:intron
GTGAAACCAGTCTTAAACAC+AGG 0.585633 1:+25664578 MsaT001740.1:CDS
AATCATGGAAGAACATCTGA+AGG 0.597406 1:-25664967 None:intergenic
TCCACTATTGTCGATCATTG+CGG 0.598884 1:+25664231 MsaT001740.1:CDS
ATAAAGTGGTATGGAGTCGA+GGG 0.602710 1:+25662563 MsaT001740.1:CDS
TGTTGATGTGAAAACTCAAG+AGG 0.614137 1:+25661409 MsaT001740.1:CDS
AAATATGACGTGAACTCTGT+TGG 0.622690 1:-25664209 None:intergenic
GTAGCGTATATGCACTATCG+TGG 0.653910 1:+25662807 MsaT001740.1:CDS
CGAGGGTGACTACAATGTGA+TGG 0.664692 1:+25662580 MsaT001740.1:CDS
ATTGTGATCTTAAAACACAA+AGG 0.669161 1:+25663292 MsaT001740.1:CDS
TTGTATAGGCTTCTTCAAGG+AGG 0.676548 1:+25662316 MsaT001740.1:CDS
AAATTGAAGGATCCACAAAG+TGG 0.696056 1:+25664445 MsaT001740.1:CDS
ACATCTGAAGGTGCATACGA+CGG 0.698148 1:-25664955 None:intergenic
AGGAAGAAATAATGGCTCTG+GGG 0.722212 1:+25664903 MsaT001740.1:intron
CATATGAAGAGAGATTAGAA+CGG 0.732307 1:+25664603 MsaT001740.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 25661250 25664987 25661250 ID=MsaG001740
Chr1 mRNA 25661250 25664987 25661250 ID=MsaT001740.1;Parent=MsaG001740
Chr1 exon 25661250 25661328 25661250 ID=MsaT001740.1.exon1;Parent=MsaT001740.1
Chr1 CDS 25661250 25661328 25661250 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25661408 25661448 25661408 ID=MsaT001740.1.exon2;Parent=MsaT001740.1
Chr1 CDS 25661408 25661448 25661408 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25662271 25662340 25662271 ID=MsaT001740.1.exon3;Parent=MsaT001740.1
Chr1 CDS 25662271 25662340 25662271 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25662549 25662697 25662549 ID=MsaT001740.1.exon4;Parent=MsaT001740.1
Chr1 CDS 25662549 25662697 25662549 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25662798 25662893 25662798 ID=MsaT001740.1.exon5;Parent=MsaT001740.1
Chr1 CDS 25662798 25662893 25662798 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25663258 25663328 25663258 ID=MsaT001740.1.exon6;Parent=MsaT001740.1
Chr1 CDS 25663258 25663328 25663258 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25663590 25663651 25663590 ID=MsaT001740.1.exon7;Parent=MsaT001740.1
Chr1 CDS 25663590 25663651 25663590 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25663773 25663836 25663773 ID=MsaT001740.1.exon8;Parent=MsaT001740.1
Chr1 CDS 25663773 25663836 25663773 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25663918 25664008 25663918 ID=MsaT001740.1.exon9;Parent=MsaT001740.1
Chr1 CDS 25663918 25664008 25663918 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25664191 25664317 25664191 ID=MsaT001740.1.exon10;Parent=MsaT001740.1
Chr1 CDS 25664191 25664317 25664191 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25664413 25664486 25664413 ID=MsaT001740.1.exon11;Parent=MsaT001740.1
Chr1 CDS 25664413 25664486 25664413 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25664572 25664632 25664572 ID=MsaT001740.1.exon12;Parent=MsaT001740.1
Chr1 CDS 25664572 25664632 25664572 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Chr1 exon 25664905 25664987 25664905 ID=MsaT001740.1.exon13;Parent=MsaT001740.1
Chr1 CDS 25664905 25664987 25664905 ID=cds.MsaT001740.1;Parent=MsaT001740.1
Gene Sequence

>MsaT001740.1

ATGATGGATATTGTTATTGGTGGAAAATTCAAGCTTGGCAGCAAACTTGGGAGTGGAGCATTTGGGGAGCTTTATTTGGGTGTTGATGTGAAAACTCAAGAGGAAGTGGCTCTTAAACTGGAACATGTGAAGACAAAGCATCCTCAACTTCTGTATGAGTCTAAATTGTATAGGCTTCTTCAAGGAGGAACCGGCATACCTCATATAAAGTGGTATGGAGTCGAGGGTGACTACAATGTGATGGCTGTTGACCTTCTTGGACCAAGTCTTGAAGACTTATTTAATTACTGCAATAGAAAATTCTCCTTAAAAACAGTATTGATGCTTGCCGATCAACTAATAAATAGAGTAGCGTATATGCACTATCGTGGATTTCTGCATCGTGATGTAAAGCCCGAGAACTTTCTAATGGGTTCAGGCAGCAAGATAAATCAGGTGTACATTATTGACTATGGCCTTGCAAAAAAGTATTGTGATCTTAAAACACAAAGGCACATACCATACAGGGAAAACAAGAATCTCATTGGAACTGCTCAATATGCAAGTTTTAACACTCACCTTGGAATTGAACAAAGTAGAAGAGATGATCTAGAATCGCTTGGTTATGTACTAATGTACTTTTTGAGAGGAAGTCTTCCATGGCATGGGCACGGCATGAAAGCTGTCACTAAAGAGAAGAAATATGAATGGATAAGGGAAAAAAAGAAGCTAACTCCAATAGAGGTCTTGTGCAAGTCACATCCAACAGAGTTCACGTCATATTTCCACTATTGTCGATCATTGCGGTTTGAAGATAAACCTGATTATTCATATCTTAAGAAACTCTTTCGGGAACTATTCATTAGAGAAGGTTATCAGTTTGACTTTGTATTTGATTGGACTAAATTGAAGGATCCACAAAGTGGTTCCAGTTCTAAAACAAGTCCAAATGTGAAACCAGTCTTAAACACAGGACCATATGAAGAGAGATTAGAACGGCCTACAGGAAGAAATAATGGCTCTGGGGACAGACTGCAGCATAGGTCTTTGGCAGATCCGTCGTATGCACCTTCAGATGTTCTTCCATGA
Protein sequence

>MsaT001740.1

MMDIVIGGKFKLGSKLGSGAFGELYLGVDVKTQEEVALKLEHVKTKHPQLLYESKLYRLLQGGTGIPHIKWYGVEGDYNVMAVDLLGPSLEDLFNYCNRKFSLKTVLMLADQLINRVAYMHYRGFLHRDVKPENFLMGSGSKINQVYIIDYGLAKKYCDLKTQRHIPYRENKNLIGTAQYASFNTHLGIEQSRRDDLESLGYVLMYFLRGSLPWHGHGMKAVTKEKKYEWIREKKKLTPIEVLCKSHPTEFTSYFHYCRSLRFEDKPDYSYLKKLFRELFIREGYQFDFVFDWTKLKDPQSGSSSKTSPNVKPVLNTGPYEERLERPTGRNNGSGDRLQHRSLADPSYAPSDVLP*