AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011185

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011185 MtrunA17_Chr2g0333621 93.060 317 12 4 1 309 1 315 0.0 570
MsaG011185 MtrunA17_Chr2g0333641 79.288 309 56 6 1 304 1 306 8.75e-169 471
MsaG011185 MtrunA17_Chr4g0002801 45.429 350 126 15 1 305 1 330 2.64e-79 244
MsaG011185 MtrunA17_Chr4g0002781 44.972 358 135 12 1 305 1 349 1.83e-78 243
MsaG011185 MtrunA17_Chr8g0336681 49.388 245 108 5 77 308 97 338 5.51e-61 197
MsaG011185 MtrunA17_Chr5g0400661 40.523 306 131 12 42 305 38 334 1.32e-52 175
MsaG011185 MtrunA17_Chr5g0400621 44.589 231 110 4 82 301 102 325 3.52e-50 169
MsaG011185 MtrunA17_Chr7g0249811 37.572 346 157 9 1 305 1 328 3.74e-50 169
MsaG011185 MtrunA17_Chr2g0333611 46.667 195 93 4 120 307 27 217 6.93e-49 162
MsaG011185 MtrunA17_Chr4g0054561 47.594 187 95 3 121 304 138 324 7.78e-46 157
MsaG011185 MtrunA17_Chr4g0049331 43.137 204 109 4 108 304 103 306 6.55e-44 152
MsaG011185 MtrunA17_Chr2g0333541 35.254 295 147 9 20 301 1 264 1.33e-43 150
MsaG011185 MtrunA17_Chr2g0280161 49.425 174 82 3 134 301 173 346 8.37e-43 150
MsaG011185 MtrunA17_Chr4g0054581 38.760 258 127 6 82 309 122 378 7.19e-42 149
MsaG011185 MtrunA17_Chr2g0307131 40.336 238 128 5 82 309 122 355 9.75e-42 147
MsaG011185 MtrunA17_Chr4g0054551 45.078 193 91 4 121 304 138 324 1.48e-41 146
MsaG011185 MtrunA17_Chr4g0033291 37.023 262 147 5 59 309 74 328 2.22e-41 146
MsaG011185 MtrunA17_Chr4g0033391 38.800 250 134 6 59 305 83 316 4.50e-41 145
MsaG011185 MtrunA17_Chr6g0468491 41.154 260 133 11 59 309 65 313 1.43e-40 143
MsaG011185 MtrunA17_Chr5g0400671 38.430 242 138 5 70 305 87 323 3.65e-40 142
MsaG011185 MtrunA17_Chr4g0054571 33.750 320 184 5 1 307 27 331 7.77e-40 142
MsaG011185 MtrunA17_Chr7g0233441 47.222 180 79 4 128 301 23 192 1.64e-39 137
MsaG011185 MtrunA17_Chr2g0307141 44.633 177 93 3 138 309 183 359 9.10e-39 140
MsaG011185 MtrunA17_Chr7g0225901 44.118 170 90 4 121 285 71 240 2.45e-36 130
MsaG011185 MtrunA17_Chr4g0033281 37.097 248 147 3 59 305 82 321 5.62e-35 129
MsaG011185 MtrunA17_Chr4g0002851 49.645 141 58 2 161 301 65 192 1.05e-34 125
MsaG011185 MtrunA17_Chr4g0054621 34.286 210 120 3 105 309 145 341 7.25e-33 124
MsaG011185 MtrunA17_Chr4g0002831 45.062 162 72 5 149 304 53 203 1.63e-32 119
MsaG011185 MtrunA17_Chr5g0400641 42.949 156 84 3 141 291 1 156 8.61e-31 113
MsaG011185 MtrunA17_Chr6g0468461 35.111 225 124 6 62 285 108 311 3.39e-26 106
MsaG011185 MtrunA17_Chr8g0368371 37.419 155 76 5 20 167 1 141 4.80e-17 76.6
MsaG011185 MtrunA17_Chr1g0185621 27.473 182 113 4 103 266 436 616 1.28e-15 77.4
MsaG011185 MtrunA17_Chr8g0346161 25.551 227 127 7 51 269 236 428 6.15e-15 75.1
MsaG011185 MtrunA17_Chr8g0366751 25.692 253 155 6 46 269 361 609 3.60e-14 72.8
MsaG011185 MtrunA17_Chr5g0411341 26.609 233 139 6 67 269 410 640 5.65e-14 72.4
MsaG011185 MtrunA17_Chr7g0275821 35.514 107 66 2 137 243 251 354 7.75e-14 71.6
MsaG011185 MtrunA17_Chr7g0260841 28.994 169 97 4 30 194 263 412 4.37e-12 66.6
MsaG011185 MtrunA17_Chr8g0346151 24.837 153 105 4 127 269 267 419 4.96e-12 66.2
MsaG011185 MtrunA17_Chr1g0211081 35.398 113 66 2 90 200 272 379 1.92e-11 64.7
MsaG011185 MtrunA17_Chr8g0386921 23.932 234 138 6 102 304 375 599 4.08e-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
MsaG011185 AT4G37850.2 34.579 321 177 9 6 307 21 327 4.69e-45 156
MsaG011185 AT4G37850.1 34.579 321 177 9 6 307 21 327 4.69e-45 156
MsaG011185 AT2G22760.1 42.857 182 93 4 130 301 111 291 3.94e-38 137
MsaG011185 AT2G22750.2 37.657 239 127 6 78 300 65 297 2.55e-35 130
MsaG011185 AT2G22750.3 37.657 239 127 6 78 300 93 325 2.82e-35 130
MsaG011185 AT2G22750.5 37.657 239 127 6 78 300 89 321 3.20e-35 130
MsaG011185 AT2G22760.2 44.242 165 82 3 130 285 111 274 7.29e-35 128
MsaG011185 AT2G22750.1 37.657 239 126 7 78 300 65 296 6.88e-34 126
MsaG011185 AT2G22750.4 37.657 239 126 7 78 300 93 324 9.34e-34 126
MsaG011185 AT2G22770.1 36.161 224 108 4 116 304 95 318 8.06e-32 121
MsaG011185 AT4G09820.1 37.410 139 72 2 128 266 353 476 7.19e-19 87.4
MsaG011185 AT4G17880.1 27.830 212 142 5 63 269 347 552 3.83e-16 79.3
MsaG011185 AT3G61950.6 33.566 143 78 4 134 264 124 261 1.77e-15 75.9
MsaG011185 AT3G61950.3 33.566 143 78 4 134 264 175 312 2.62e-15 75.9
MsaG011185 AT3G61950.2 33.566 143 78 4 134 264 124 261 3.74e-15 75.1
MsaG011185 AT3G61950.1 33.566 143 78 4 134 264 175 312 4.86e-15 75.1
MsaG011185 AT5G46760.1 26.860 242 158 6 41 269 320 555 9.05e-15 75.1
MsaG011185 AT1G32640.1 29.801 151 97 4 127 269 440 589 3.19e-14 73.6
MsaG011185 AT2G46510.1 32.787 122 68 2 121 241 377 485 8.73e-14 72.0
MsaG011185 AT1G63650.3 31.333 150 76 5 138 262 405 552 3.59e-13 70.5
MsaG011185 AT1G63650.1 31.333 150 76 5 138 262 405 552 3.59e-13 70.5
MsaG011185 AT1G63650.2 31.333 150 76 5 138 262 405 552 3.59e-13 70.5
MsaG011185 AT1G12860.2 30.519 154 88 4 139 277 268 417 4.91e-12 66.6
MsaG011185 AT1G12860.1 30.519 154 88 4 139 277 268 417 6.55e-12 66.2
MsaG011185 AT1G01260.1 39.437 71 42 1 127 196 421 491 1.22e-11 65.9
MsaG011185 AT1G01260.2 39.437 71 42 1 127 196 421 491 1.22e-11 65.9
MsaG011185 AT1G01260.3 39.437 71 42 1 127 196 421 491 1.22e-11 65.9
MsaG011185 AT3G26744.6 29.221 154 94 4 139 277 308 461 3.91e-11 63.9
MsaG011185 AT3G26744.1 29.221 154 94 4 139 277 308 461 4.09e-11 63.9
MsaG011185 AT3G26744.4 29.221 154 94 4 139 277 308 461 4.09e-11 63.9
MsaG011185 AT3G26744.2 29.221 154 94 4 139 277 308 461 4.09e-11 63.9
MsaG011185 AT2G16910.1 29.348 184 94 6 139 295 315 489 4.95e-11 63.9
MsaG011185 AT4G16430.1 42.424 66 37 1 127 191 308 373 6.67e-11 63.2

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTACTTCTTGTTCTGATTC+TGG 0.178025 2:-82344425 None:intergenic
CAGCAACCTGTTACATATTC+TGG 0.210205 2:+82344263 MsaT011185.1:CDS
GCCAGCAGTGTATTTCCTTT+TGG 0.257466 2:+82349489 MsaT011185.1:CDS
TGGAGCAATCATGGGAAAAT+TGG 0.268938 2:+82343972 MsaT011185.1:CDS
TTACTTCTACTCTTTGTTCT+TGG 0.277856 2:-82344446 None:intergenic
GCACTTTCAGCTACTATTCC+TGG 0.324686 2:+82344602 MsaT011185.1:CDS
TCAGTGTTTGGATCACATTA+TGG 0.344284 2:+82344538 MsaT011185.1:CDS
TAGAAGTGGTTCTCAGTGTT+TGG 0.364117 2:+82344526 MsaT011185.1:CDS
ATCCACTGTGAGAAGGAAAA+TGG 0.369029 2:+82349414 MsaT011185.1:CDS
TTCTTCTCATGGAGCAATCA+TGG 0.379874 2:+82343963 None:intergenic
AAGTAATAATAAGAGGAGTT+TGG 0.391916 2:+82344463 MsaT011185.1:CDS
TGGCTTCACTATTGTTGCTC+AGG 0.404693 2:+82349524 MsaT011185.1:CDS
CTGCTTCCAGAATATGTAAC+AGG 0.405610 2:-82344269 None:intergenic
AATACTCTTGCTTTAACATC+GGG 0.413771 2:-82349369 None:intergenic
GGAAAATTGGCCTCTTCATT+CGG 0.420212 2:+82343985 MsaT011185.1:CDS
AGAGTAGAAGTAATAATAAG+AGG 0.424376 2:+82344456 MsaT011185.1:CDS
TGTAGTAGTAGCTGGTATTA+TGG 0.433106 2:-82344402 None:intergenic
CAATACTCTTGCTTTAACAT+CGG 0.444375 2:-82349370 None:intergenic
TTCTACTCTTCTTTCCACTT+TGG 0.465419 2:-82344508 None:intergenic
GATTCTGGTGTAGTAGTAGC+TGG 0.465607 2:-82344410 None:intergenic
ATTATTACCTTCTTCAAGCC+AGG 0.465921 2:-82344620 None:intergenic
AGAACGTGTGAAGGAGTTAG+AGG 0.469057 2:+82349245 MsaT011185.1:CDS
TTAACATCGGGGAGTGATGA+TGG 0.470979 2:-82349357 None:intergenic
AAGGAGAGAATGAATGTCCT+TGG 0.473742 2:-82344368 None:intergenic
AAATGACACAAATTCTGATC+AGG 0.480808 2:+82349323 MsaT011185.1:CDS
CGATGTTAAAGCAAGAGTAT+TGG 0.484556 2:+82349371 MsaT011185.1:CDS
TTTATCATCTTCTAGTGAGA+TGG 0.493845 2:+82344292 MsaT011185.1:CDS
GATTGCTTCACCAAGTATAG+AGG 0.505445 2:-82349202 None:intergenic
AGCAATTGCTTCTGAATATG+AGG 0.510804 2:+82350377 MsaT011185.1:CDS
TACTATTCCTGGCTTGAAGA+AGG 0.517604 2:+82344613 MsaT011185.1:CDS
CAAAATGAAGGTGAATGATC+TGG 0.518407 2:+82350342 MsaT011185.1:CDS
CCAAGAGTTGAATTCCCAAA+AGG 0.521924 2:-82349504 None:intergenic
TCTTCTCATGGAGCAATCAT+GGG 0.526288 2:+82343964 None:intergenic
ATGGACGGCTCAGATAGCTC+AGG 0.532196 2:+82344311 MsaT011185.1:CDS
CCCAAAAGGAAATACACTGC+TGG 0.556531 2:-82349490 None:intergenic
CTTCTGAATATGAGGAGTTG+AGG 0.558111 2:+82350385 MsaT011185.1:CDS
ATGGACAAGACCTCTATACT+TGG 0.562754 2:+82349192 MsaT011185.1:CDS
AGTGGAAAGAAGAGTAGAAG+TGG 0.563816 2:+82344512 MsaT011185.1:CDS
TATTATGGTTGATTTATCAA+AGG 0.577249 2:-82344387 None:intergenic
CATTGAGATCCACTGTGAGA+AGG 0.587275 2:+82349407 MsaT011185.1:CDS
GCAAAAGCTAGTAACCAAAG+TGG 0.590525 2:+82344494 MsaT011185.1:CDS
GGAGTGGACGGTGTTGATGA+AGG 0.594219 2:-82344347 None:intergenic
GTTGATGTAGAGAATATGCA+AGG 0.598569 2:+82344179 MsaT011185.1:CDS
AGTTAGAGGAACGGAACAAG+AGG 0.599418 2:+82349259 MsaT011185.1:CDS
GAGAATGAATGTCCTTGGAG+TGG 0.602643 2:-82344363 None:intergenic
ATTCAGAAGCAATTGCTGCA+TGG 0.604569 2:-82350371 None:intergenic
GGGTGACGAGTACAAAATGA+AGG 0.610842 2:+82350330 MsaT011185.1:CDS
AGTGTTATTACCGAATGAAG+AGG 0.617526 2:-82343995 None:intergenic
CATCAACACCGTCCACTCCA+AGG 0.620000 2:+82344351 MsaT011185.1:CDS
ATGAATGTCCTTGGAGTGGA+CGG 0.625719 2:-82344359 None:intergenic
TCATCTTCTAGTGAGATGGA+CGG 0.629400 2:+82344296 MsaT011185.1:CDS
ACTACTTCAAGAACGTGTGA+AGG 0.641075 2:+82349236 MsaT011185.1:CDS
TGGACGGCTCAGATAGCTCA+GGG 0.674267 2:+82344312 MsaT011185.1:CDS
GTGTGAAGGAGTTAGAGGAA+CGG 0.690708 2:+82349250 MsaT011185.1:CDS
ATACTCTTGCTTTAACATCG+GGG 0.724639 2:-82349368 None:intergenic
TTGATGTAGAGAATATGCAA+GGG 0.725229 2:+82344180 MsaT011185.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 82343971 82350405 82343971 ID=MsaG011185
Chr2 mRNA 82343971 82350405 82343971 ID=MsaT011185.1;Parent=MsaG011185
Chr2 exon 82343971 82344006 82343971 ID=MsaT011185.1.exon1;Parent=MsaT011185.1
Chr2 CDS 82343971 82344006 82343971 ID=cds.MsaT011185.1;Parent=MsaT011185.1
Chr2 exon 82344173 82344634 82344173 ID=MsaT011185.1.exon2;Parent=MsaT011185.1
Chr2 CDS 82344173 82344634 82344173 ID=cds.MsaT011185.1;Parent=MsaT011185.1
Chr2 exon 82349192 82349545 82349192 ID=MsaT011185.1.exon3;Parent=MsaT011185.1
Chr2 CDS 82349192 82349545 82349192 ID=cds.MsaT011185.1;Parent=MsaT011185.1
Chr2 exon 82350328 82350405 82350328 ID=MsaT011185.1.exon4;Parent=MsaT011185.1
Chr2 CDS 82350328 82350405 82350328 ID=cds.MsaT011185.1;Parent=MsaT011185.1
Gene Sequence

>MsaT011185.1

ATGGAGCAATCATGGGAAAATTGGCCTCTTCATTCGGAAGTGGTTGATGTAGAGAATATGCAAGGGCAATATTGTCATCAAACAAGTATTGATGATGAAGAAGAGTTCTTGAGAGACATAATTCTTCAGCAACCTGTTACATATTCTGGAAGCAGTTTATCATCTTCTAGTGAGATGGACGGCTCAGATAGCTCAGGGAAAAAGCTTCATCCTTCATCAACACCGTCCACTCCAAGGACATTCATTCTCTCCTTTGATAAATCAACCATAATACCAGCTACTACTACACCAGAATCAGAACAAGAAGTACCAAGAACAAAGAGTAGAAGTAATAATAAGAGGAGTTTGGAAACAAAAGCAAAAGCTAGTAACCAAAGTGGAAAGAAGAGTAGAAGTGGTTCTCAGTGTTTGGATCACATTATGGCTGAGAGAAAAAGAAGATTAGAACTATCACAGAAGTTCATTGCACTTTCAGCTACTATTCCTGGCTTGAAGAAGATGGACAAGACCTCTATACTTGGTGAAGCAATCAATTATGTGAAACTACTTCAAGAACGTGTGAAGGAGTTAGAGGAACGGAACAAGAGGAACATCGAATCAACAATAATCCACAAAAGTGATTTGTGTACAAATGACACAAATTCTGATCAGGATTGTTGTAAACCATCATCACTCCCCGATGTTAAAGCAAGAGTATTGGAAAATGAAGTGCTCATTGAGATCCACTGTGAGAAGGAAAATGGCATTGAGATCAAAATATTGAACTTGCTTGAAAATCTTCATCTTATTGTCACTGCCAGCAGTGTATTTCCTTTTGGGAATTCAACTCTTGGCTTCACTATTGTTGCTCAGATGGGTGACGAGTACAAAATGAAGGTGAATGATCTGGTGAAAACCATGCAGCAATTGCTTCTGAATATGAGGAGTTGA
Protein sequence

>MsaT011185.1

MEQSWENWPLHSEVVDVENMQGQYCHQTSIDDEEEFLRDIILQQPVTYSGSSLSSSSEMDGSDSSGKKLHPSSTPSTPRTFILSFDKSTIIPATTTPESEQEVPRTKSRSNNKRSLETKAKASNQSGKKSRSGSQCLDHIMAERKRRLELSQKFIALSATIPGLKKMDKTSILGEAINYVKLLQERVKELEERNKRNIESTIIHKSDLCTNDTNSDQDCCKPSSLPDVKARVLENEVLIEIHCEKENGIEIKILNLLENLHLIVTASSVFPFGNSTLGFTIVAQMGDEYKMKVNDLVKTMQQLLLNMRS*