AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037527


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037527 MtrunA17_Chr7g0236851 83.773 493 45 3 1 458 165 657 0.0 819
MsaG037527 MtrunA17_Chr6g0468561 46.652 448 177 10 63 457 223 661 9.50e-109 336
MsaG037527 MtrunA17_Chr4g0037781 74.468 188 36 2 75 250 1 188 7.36e-90 271
MsaG037527 MtrunA17_Chr3g0125811 36.176 387 188 10 120 457 193 569 6.35e-66 221
MsaG037527 MtrunA17_Chr1g0159461 36.412 379 182 9 128 457 223 591 1.53e-61 210
MsaG037527 MtrunA17_Chr5g0447691 30.769 416 230 10 88 457 140 543 3.73e-51 181
MsaG037527 MtrunA17_Chr4g0037771 73.214 112 29 1 132 242 1 112 6.66e-51 168
MsaG037527 MtrunA17_Chr4g0076091 31.771 384 194 10 128 457 173 542 7.71e-50 177
MsaG037527 MtrunA17_Chr2g0319091 36.913 298 142 7 200 457 287 578 1.75e-49 177
MsaG037527 MtrunA17_Chr3g0101141 33.893 298 151 7 200 457 250 541 4.49e-45 165
MsaG037527 MtrunA17_Chr5g0445331 30.607 379 208 10 128 457 159 531 5.08e-44 162
MsaG037527 MtrunA17_Chr2g0290241 45.087 173 93 2 287 457 252 424 1.37e-41 153
MsaG037527 MtrunA17_Chr8g0357601 28.852 305 170 7 191 457 256 551 3.06e-27 114
MsaG037527 MtrunA17_Chr7g0224271 29.097 299 153 10 200 457 392 672 5.33e-26 111
MsaG037527 MtrunA17_Chr3g0110971 27.922 308 161 8 202 457 288 586 3.86e-24 105
MsaG037527 MtrunA17_Chr8g0376381 26.075 372 214 14 129 457 168 521 3.35e-23 102
MsaG037527 MtrunA17_Chr4g0031721 23.387 372 235 7 131 457 317 683 1.71e-21 97.8
MsaG037527 MtrunA17_Chr2g0306641 27.476 313 176 9 189 457 181 486 4.41e-21 95.9
MsaG037527 MtrunA17_Chr4g0057291 30.303 264 135 10 237 457 404 661 5.60e-20 92.8
MsaG037527 MtrunA17_Chr4g0057891 28.261 230 131 6 255 457 297 519 6.26e-19 89.4
MsaG037527 MtrunA17_Chr4g0031741 29.714 175 119 3 287 457 475 649 8.89e-19 89.4
MsaG037527 MtrunA17_Chr2g0328381 24.933 373 226 10 131 457 276 640 1.64e-18 88.2
MsaG037527 MtrunA17_Chr5g0396491 35.762 151 90 3 312 457 329 477 1.79e-18 87.8
MsaG037527 MtrunA17_Chr4g0031711 20.994 362 232 8 146 458 377 733 3.33e-18 87.4
MsaG037527 MtrunA17_Chr4g0038851 34.000 150 94 3 312 457 320 468 1.22e-17 85.1
MsaG037527 MtrunA17_Chr2g0328391 25.500 200 132 3 261 457 483 668 2.19e-17 85.1
MsaG037527 MtrunA17_Chr4g0031731 20.891 359 230 8 146 455 270 623 6.44e-17 83.6
MsaG037527 MtrunA17_Chr2g0328341 23.989 371 234 10 131 458 273 638 9.10e-17 82.8
MsaG037527 MtrunA17_Chr2g0328411 27.429 175 122 3 287 457 480 653 2.36e-16 81.6
MsaG037527 MtrunA17_Chr3g0085681 32.877 146 96 2 314 457 290 435 2.68e-16 80.9
MsaG037527 MtrunA17_Chr7g0238891 21.833 371 242 6 131 457 373 739 2.95e-16 81.6
MsaG037527 MtrunA17_Chr2g0328431 28.161 174 122 3 287 457 480 653 9.04e-16 79.7
MsaG037527 MtrunA17_Chr4g0031701 20.334 359 232 8 146 455 270 623 1.14e-15 79.3
MsaG037527 MtrunA17_Chr3g0085361 31.724 145 98 1 314 457 205 349 1.44e-15 77.8
MsaG037527 MtrunA17_Chr5g0401421 26.190 210 138 3 265 457 236 445 1.85e-14 75.1
MsaG037527 MtrunA17_Chr4g0053901 24.615 195 124 2 286 457 273 467 2.97e-14 74.7
MsaG037527 MtrunA17_Chr7g0270031 24.670 227 148 3 254 457 327 553 4.02e-14 74.7
MsaG037527 MtrunA17_Chr2g0328371 26.160 237 135 7 210 411 16 247 7.78e-14 71.2
MsaG037527 MtrunA17_Chr2g0328401 30.159 126 87 1 287 411 481 606 1.35e-13 73.2
MsaG037527 MtrunA17_Chr2g0323111 25.000 148 110 1 311 457 158 305 8.69e-12 66.2
MsaG037527 MtrunA17_Chr1g0194621 25.551 227 145 4 254 457 292 517 8.92e-12 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037527 AT5G52510.1 44.130 460 188 14 51 457 196 639 3.17e-97 305
MsaG037527 AT1G21450.1 33.407 455 231 14 53 457 160 592 3.56e-60 207
MsaG037527 AT5G48150.1 30.716 433 235 12 80 457 67 489 3.76e-53 186
MsaG037527 AT5G48150.4 30.716 433 235 12 80 457 67 489 3.76e-53 186
MsaG037527 AT5G48150.2 30.716 433 235 12 80 457 67 489 3.76e-53 186
MsaG037527 AT5G48150.3 30.716 433 235 12 80 457 67 489 3.76e-53 186
MsaG037527 AT2G04890.1 31.989 372 201 11 128 457 51 412 1.62e-47 169
MsaG037527 AT1G50600.3 30.749 374 210 9 128 457 157 525 1.18e-44 164
MsaG037527 AT1G50600.1 30.749 374 210 9 128 457 228 596 1.99e-44 164
MsaG037527 AT1G50600.2 30.749 374 210 9 128 457 232 600 2.84e-44 164
MsaG037527 AT4G17230.1 29.919 371 217 8 128 457 156 524 7.08e-42 156
MsaG037527 AT4G17230.2 29.919 371 217 8 128 457 156 524 7.08e-42 156
MsaG037527 AT3G03450.1 29.066 289 156 6 209 457 265 544 3.78e-25 108
MsaG037527 AT5G17490.1 28.231 294 164 6 202 457 231 515 2.66e-23 103
MsaG037527 AT1G66350.1 25.474 369 218 12 129 457 154 505 7.97e-23 101
MsaG037527 AT2G29065.1 25.197 381 227 11 131 458 253 628 3.50e-22 100
MsaG037527 AT2G01570.1 25.469 373 219 10 129 457 223 580 1.32e-21 98.2
MsaG037527 AT1G14920.1 27.931 290 157 9 209 457 250 528 2.27e-20 94.4
MsaG037527 AT1G07530.1 22.493 369 245 6 131 458 397 765 2.80e-20 94.4
MsaG037527 AT2G29060.2 22.995 374 239 8 131 458 285 655 3.56e-20 94.0
MsaG037527 AT2G29060.1 23.056 373 238 8 131 457 322 691 3.58e-20 94.0
MsaG037527 AT5G59450.1 22.985 335 205 9 171 457 268 597 6.97e-18 86.7
MsaG037527 AT1G50420.1 33.333 150 95 3 312 457 330 478 1.27e-17 85.5
MsaG037527 AT2G37650.2 21.858 366 246 7 131 457 336 700 3.80e-17 84.7
MsaG037527 AT1G07520.3 23.077 377 231 11 135 458 324 694 4.22e-17 84.3
MsaG037527 AT1G07520.1 23.077 377 231 11 135 458 323 693 4.37e-17 84.3
MsaG037527 AT2G37650.1 21.858 366 246 7 131 457 348 712 4.39e-17 84.3
MsaG037527 AT3G50650.1 26.846 298 158 9 210 457 254 541 7.41e-17 83.6
MsaG037527 AT3G46600.2 28.249 177 120 3 286 457 196 370 7.92e-17 82.4
MsaG037527 AT1G07520.2 23.077 377 231 11 135 458 159 529 1.01e-16 83.2
MsaG037527 AT1G07520.4 23.077 377 231 11 135 458 159 529 1.01e-16 83.2
MsaG037527 AT3G46600.1 28.249 177 120 3 286 457 404 578 1.49e-16 82.8
MsaG037527 AT3G46600.3 28.249 177 120 3 286 457 372 546 1.74e-16 82.4
MsaG037527 AT5G66770.1 29.508 244 118 9 210 410 300 532 4.67e-16 81.3
MsaG037527 AT3G49950.1 23.454 388 241 8 124 458 24 408 5.78e-15 77.0
MsaG037527 AT4G37650.1 23.716 409 239 12 113 457 129 528 1.62e-13 73.2
MsaG037527 AT5G41920.1 24.202 376 216 13 131 457 44 399 2.02e-13 72.4
MsaG037527 AT1G63100.2 33.858 127 81 3 286 411 468 592 6.59e-12 68.2
MsaG037527 AT1G63100.1 33.858 127 81 3 286 411 443 567 6.84e-12 68.2
MsaG037527 AT5G67411.1 33.333 108 71 1 289 396 92 198 2.32e-11 63.5
MsaG037527 AT1G55580.1 23.245 413 224 12 128 457 42 444 4.71e-11 65.1

Find 77 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATCCGATAGTTGGTTAT+TGG 0.173769 7:-59888015 MsaT037527.1:CDS
CTCTCACTGTTGCATCTTCT+TGG 0.206129 7:-59887048 MsaT037527.1:CDS
TTGCTTCAAGCTCTCTTTCA+TGG 0.207322 7:-59887877 MsaT037527.1:CDS
GAATGGTCACTAGTTGTTTC+TGG 0.207414 7:-59888299 MsaT037527.1:CDS
GAAATCCATCGGAGAACTTT+TGG 0.212473 7:-59887658 MsaT037527.1:CDS
TTCAATTTCTGAAGGCAAAA+TGG 0.213549 7:-59888090 MsaT037527.1:CDS
TCCAAGCATTGTCACAGTTT+TGG 0.258937 7:-59887431 MsaT037527.1:CDS
GAGAGATTAAAGCTTGAAAA+AGG 0.266629 7:-59887295 MsaT037527.1:CDS
GGCTTCAAGGATTGCGATAT+TGG 0.275042 7:+59887851 None:intergenic
AAAGAAGGTGAGAATGAAAT+AGG 0.311106 7:+59888200 None:intergenic
TCACACTCTTTGTTGTATCT+TGG 0.314011 7:+59887823 None:intergenic
CGTGCACGCATGAGCATGGC+TGG 0.338695 7:-59887193 MsaT037527.1:CDS
TCATACATCATCTTCTTGTC+TGG 0.342721 7:+59888362 None:intergenic
GCATGAGCATGGCTGGGTTT+AGG 0.345416 7:-59887186 MsaT037527.1:CDS
GGTCGAGAAGCTGAGAGTTT+AGG 0.349907 7:-59887636 MsaT037527.1:CDS
TGAAGGATTGAATTGTTCAT+AGG 0.353656 7:+59888458 None:intergenic
ATTGAATTGTTCATAGGTAA+TGG 0.359237 7:+59888464 None:intergenic
TTGAATTGTTCATAGGTAAT+GGG 0.362850 7:+59888465 None:intergenic
TGGAGTTTGCTTTGGTTGGA+TGG 0.363970 7:-59887077 MsaT037527.1:CDS
AGCTTCCATTAACGATTGTT+TGG 0.384672 7:+59888118 None:intergenic
AATGGTCACTAGTTGTTTCT+GGG 0.387462 7:-59888298 MsaT037527.1:CDS
TTGTCTGGGTCATAACTTGT+TGG 0.402653 7:+59888377 None:intergenic
ATGGTGGAGTTTGCTTTGGT+TGG 0.406060 7:-59887081 MsaT037527.1:CDS
TCCATTGACACGCTCTCATC+TGG 0.406210 7:+59887496 None:intergenic
GGAGTTTGCTTTGGTTGGAT+GGG 0.411286 7:-59887076 MsaT037527.1:CDS
GTCGTGATCTTCAACATTGC+TGG 0.414937 7:+59887711 None:intergenic
GTTACTGACTCAGTAACTTT+CGG 0.416851 7:+59887148 None:intergenic
TATCTTGGAATGCGGCTTCA+AGG 0.418126 7:+59887838 None:intergenic
GCATAGTAATTCTGCTACCT+TGG 0.426141 7:+59887113 None:intergenic
TGTTTCTGACCATTCGTTGT+TGG 0.451392 7:+59888265 None:intergenic
AAGCTGAGAGTTTAGGAATC+GGG 0.451634 7:-59887629 MsaT037527.1:intron
CAGTAACTTTCGGACTCATC+GGG 0.453689 7:+59887158 None:intergenic
GAGAATGGTGGAGTTTGCTT+TGG 0.469489 7:-59887085 MsaT037527.1:CDS
ACCAGATGAGAGCGTGTCAA+TGG 0.479710 7:-59887497 MsaT037527.1:CDS
GAACTCCATGCGAGTCTCAA+TGG 0.484923 7:-59887738 MsaT037527.1:CDS
CAAGAAGATGATGTATGAGT+TGG 0.484966 7:-59888357 MsaT037527.1:CDS
TCCAAAACTGTGACAATGCT+TGG 0.490294 7:+59887430 None:intergenic
TCAGTAACTTTCGGACTCAT+CGG 0.497001 7:+59887157 None:intergenic
CAAAACTAAAATCCGATAGT+TGG 0.506455 7:-59888022 MsaT037527.1:CDS
GAAGCTGAGAGTTTAGGAAT+CGG 0.518502 7:-59887630 MsaT037527.1:CDS
TCGACCCAAAAGTTCTCCGA+TGG 0.533012 7:+59887653 None:intergenic
CTTTGTTGTATCTTGGAATG+CGG 0.536014 7:+59887830 None:intergenic
ATTACTATGCATGAAGAGAA+TGG 0.538015 7:-59887100 MsaT037527.1:CDS
CATACATCATCTTCTTGTCT+GGG 0.542385 7:+59888363 None:intergenic
GCTGGTGAAACAATAGATGA+AGG 0.542748 7:+59888152 None:intergenic
TGTTTGGAAAACTCAGAAGC+TGG 0.544411 7:+59888134 None:intergenic
AGAATCTATTGAATTTGCGA+TGG 0.545507 7:-59887332 MsaT037527.1:CDS
TGCAGTTGCTTGTGAAGGGA+GGG 0.563266 7:-59887251 MsaT037527.1:CDS
GCAATCCAATAACCAACTAT+CGG 0.570837 7:+59888010 None:intergenic
ACATTGATGATGAAGAAGAA+TGG 0.574603 7:-59888316 MsaT037527.1:CDS
GCTGCCACTTCAATTTCTGA+AGG 0.575775 7:-59888098 MsaT037527.1:CDS
ATGGCGTGCACGCATGAGCA+TGG 0.579124 7:-59887197 MsaT037527.1:CDS
AAGGGAGGGATCGTGTGGAA+AGG 0.587033 7:-59887237 MsaT037527.1:CDS
TTTGAACAATTCCATCGAGG+TGG 0.587445 7:+59887945 None:intergenic
GTGCACGCATGAGCATGGCT+GGG 0.597641 7:-59887192 MsaT037527.1:CDS
AGAAATGCAGTTGCTTGTGA+AGG 0.600882 7:-59887256 MsaT037527.1:CDS
ATGCAGTTGCTTGTGAAGGG+AGG 0.602267 7:-59887252 MsaT037527.1:CDS
GTGTATGTGCGAAACTAGAG+AGG 0.610106 7:+59888051 None:intergenic
AGATGAATTTAGTGATGTGG+TGG 0.611511 7:+59888175 None:intergenic
TGTGAAGAATCTCTGTGTTG+TGG 0.612679 7:-59887805 MsaT037527.1:CDS
GTGAACCATTGAGACTCGCA+TGG 0.614247 7:+59887733 None:intergenic
AAAGAGAAGTTGAGTTGACT+CGG 0.617772 7:+59887911 None:intergenic
TTATGAACACCAACAACGAA+TGG 0.618414 7:-59888274 MsaT037527.1:CDS
ACATTGAAAATCCACCTCGA+TGG 0.620518 7:-59887956 MsaT037527.1:CDS
TTTGCCTTCAGAAATTGAAG+TGG 0.629683 7:+59888094 None:intergenic
AGGAGATGAATTTAGTGATG+TGG 0.635063 7:+59888172 None:intergenic
GATGACAATCTGAAATCCAT+CGG 0.638005 7:-59887669 MsaT037527.1:CDS
AGGCAAAATGGATTATGCGA+AGG 0.646229 7:-59888078 MsaT037527.1:CDS
AGCAACATTAGTTTCACGTG+TGG 0.651214 7:-59887386 MsaT037527.1:CDS
TTCTTTGAACAATTCCATCG+AGG 0.654525 7:+59887942 None:intergenic
TGGATTTCAGATTGTCATCG+TGG 0.656125 7:+59887673 None:intergenic
GAAATGCAGTTGCTTGTGAA+GGG 0.657022 7:-59887255 MsaT037527.1:CDS
GTAACTTCAAGACTCATCCA+AGG 0.665089 7:-59887130 MsaT037527.1:CDS
TGACGAAGAAGTGTGTCACG+TGG 0.698381 7:+59887469 None:intergenic
GTTGAAGATCACGACTGTGA+CGG 0.707788 7:-59887703 MsaT037527.1:CDS
TTGTGAAGGGAGGGATCGTG+TGG 0.715844 7:-59887242 MsaT037527.1:CDS
ACTATGCATGAAGAGAATGG+TGG 0.717414 7:-59887097 MsaT037527.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 59887042 59888519 59887042 ID=MsaG037527
Chr7 mRNA 59887042 59888519 59887042 ID=MsaT037527.1;Parent=MsaG037527
Chr7 exon 59887042 59887561 59887042 ID=MsaT037527.1.exon3;Parent=MsaT037527.1
Chr7 CDS 59887042 59887561 59887042 ID=cds.MsaT037527.1;Parent=MsaT037527.1
Chr7 exon 59887630 59887759 59887630 ID=MsaT037527.1.exon2;Parent=MsaT037527.1
Chr7 CDS 59887630 59887759 59887630 ID=cds.MsaT037527.1;Parent=MsaT037527.1
Chr7 exon 59887793 59888519 59887793 ID=MsaT037527.1.exon1;Parent=MsaT037527.1
Chr7 CDS 59887793 59888519 59887793 ID=cds.MsaT037527.1;Parent=MsaT037527.1
Gene Sequence

>MsaT037527.1

ATGTCTCTTCGCTCAAACCCTGATATTCAAAACCCATTACCTATGAACAATTCAATCCTTCAAAATACGAATTTTTCCTATGAAAATTCTGATTTTGCTGAGATTCAAAGCACGGTAGTTCCAACAAGTTATGACCCAGACAAGAAGATGATGTATGAGTTGGAGAAAAAGCTTCATGAAGACATTGATGATGAAGAAGAATGGTCACTAGTTGTTTCTGGGATTATGAACACCAACAACGAATGGTCAGAAACAATTCGTAATTTGAATAGTTTCGAGCAAAACCCCATCCAAAAACCTATTTCATTCTCACCTTCTTTTTCCACCACATCACTAAATTCATCTCCTTCATCTATTGTTTCACCAGCTTCTGAGTTTTCCAAACAATCGTTAATGGAAGCTGCCACTTCAATTTCTGAAGGCAAAATGGATTATGCGAAGGAGATCCTCTCTAGTTTCGCACATACACAAAACCCAAAACTAAAATCCGATAGTTGGTTATTGGATTGCATTGCTTCAGCGCTGAAATCGCGTCTGAATAACATTGAAAATCCACCTCGATGGAATTGTTCAAAGAAAGAACATGCCGAGTCAACTCAACTTCTCTTTGATCACTCTTTTTGCTTCAAGCTCTCTTTCATGGCTGCCAATATCGCAATCCTTGAAGCCGCATTCCAAGATACAACAAAGAGTGTGAAGAATCTCTGTGTTGTGGATTTTGATATTGAACTCCATGCGAGTCTCAATGGTTCACCAGCAATGTTGAAGATCACGACTGTGACGGTGAACATCCACGATGACAATCTGAAATCCATCGGAGAACTTTTGGGTCGAGAAGCTGAGAGTTTAGGAATCGGGGATATTCTTGCTGTGAATTTCGCGTTTAATCTATACAAAATACCAGATGAGAGCGTGTCAATGGAGAATCCACGTGACACACTTCTTCGTCAAGTGAAATCACTCTCTCCAAGCATTGTCACAGTTTTGGAGCAAGAGATGAATACAAACACAGCAACATTAGTTTCACGTGTGGCTGAAACTTGTTCTTATTACAGCACATTGCTAGAATCTATTGAATTTGCGATGGATCGTGATAGTTATGAGAGATTAAAGCTTGAAAAAGGACTGAGCATGAAGATGAGAAATGCAGTTGCTTGTGAAGGGAGGGATCGTGTGGAAAGGTGTGAAGTTTTTGGGAAATGGCGTGCACGCATGAGCATGGCTGGGTTTAGGTTAAACCCGATGAGTCCGAAAGTTACTGAGTCAGTAACTTCAAGACTCATCCAAGGTAGCAGAATTACTATGCATGAAGAGAATGGTGGAGTTTGCTTTGGTTGGATGGGAAAAACTCTCACTGTTGCATCTTCTTGGTGTTAA

Protein sequence

>MsaT037527.1

MSLRSNPDIQNPLPMNNSILQNTNFSYENSDFAEIQSTVVPTSYDPDKKMMYELEKKLHEDIDDEEEWSLVVSGIMNTNNEWSETIRNLNSFEQNPIQKPISFSPSFSTTSLNSSPSSIVSPASEFSKQSLMEAATSISEGKMDYAKEILSSFAHTQNPKLKSDSWLLDCIASALKSRLNNIENPPRWNCSKKEHAESTQLLFDHSFCFKLSFMAANIAILEAAFQDTTKSVKNLCVVDFDIELHASLNGSPAMLKITTVTVNIHDDNLKSIGELLGREAESLGIGDILAVNFAFNLYKIPDESVSMENPRDTLLRQVKSLSPSIVTVLEQEMNTNTATLVSRVAETCSYYSTLLESIEFAMDRDSYERLKLEKGLSMKMRNAVACEGRDRVERCEVFGKWRARMSMAGFRLNPMSPKVTESVTSRLIQGSRITMHEENGGVCFGWMGKTLTVASSWC*