AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025351


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025351 MtrunA17_Chr5g0400671 95.122 328 14 1 1 328 1 326 0.0 617
MsaG025351 MtrunA17_Chr4g0054561 47.740 354 125 15 1 324 1 324 7.52e-84 256
MsaG025351 MtrunA17_Chr4g0054551 44.915 354 135 15 1 324 1 324 5.24e-78 241
MsaG025351 MtrunA17_Chr2g0280161 35.897 351 189 11 2 323 5 348 8.60e-55 182
MsaG025351 MtrunA17_Chr4g0049331 34.472 322 183 10 15 324 1 306 2.32e-51 172
MsaG025351 MtrunA17_Chr5g0400661 40.336 238 121 6 104 325 102 334 9.41e-48 163
MsaG025351 MtrunA17_Chr5g0400621 38.783 263 141 4 63 323 83 327 4.19e-47 162
MsaG025351 MtrunA17_Chr4g0002781 38.060 268 135 7 68 325 103 349 1.40e-45 158
MsaG025351 MtrunA17_Chr2g0333621 36.822 258 137 6 75 325 73 311 1.62e-44 154
MsaG025351 MtrunA17_Chr4g0002801 40.708 226 115 4 116 325 108 330 2.11e-44 154
MsaG025351 MtrunA17_Chr4g0033391 41.989 181 99 2 147 325 140 316 1.26e-42 150
MsaG025351 MtrunA17_Chr8g0336681 40.212 189 101 3 147 325 149 335 1.52e-41 147
MsaG025351 MtrunA17_Chr2g0333611 40.541 185 101 5 145 325 36 215 5.02e-41 142
MsaG025351 MtrunA17_Chr2g0307131 42.021 188 103 2 141 322 161 348 2.16e-40 144
MsaG025351 MtrunA17_Chr7g0225901 45.513 156 84 1 151 305 85 240 3.15e-40 141
MsaG025351 MtrunA17_Chr4g0033291 41.748 206 103 4 126 325 130 324 7.99e-40 142
MsaG025351 MtrunA17_Chr6g0468491 41.954 174 100 1 149 321 132 305 1.17e-39 142
MsaG025351 MtrunA17_Chr2g0307141 44.000 175 91 3 152 322 181 352 1.40e-39 142
MsaG025351 MtrunA17_Chr4g0054581 40.704 199 102 6 138 325 181 374 3.86e-39 142
MsaG025351 MtrunA17_Chr7g0249811 40.782 179 98 1 147 325 158 328 1.55e-38 139
MsaG025351 MtrunA17_Chr2g0333641 35.060 251 137 6 87 324 69 306 5.47e-38 137
MsaG025351 MtrunA17_Chr5g0400641 44.737 152 83 1 157 307 1 152 9.43e-38 132
MsaG025351 MtrunA17_Chr4g0033281 38.806 201 115 4 126 325 128 321 1.11e-36 134
MsaG025351 MtrunA17_Chr4g0054621 35.263 190 114 3 138 325 155 337 1.33e-33 126
MsaG025351 MtrunA17_Chr4g0054571 38.542 192 104 2 145 325 141 329 1.48e-33 126
MsaG025351 MtrunA17_Chr2g0333541 40.860 186 103 3 147 327 87 270 1.78e-33 124
MsaG025351 MtrunA17_Chr6g0468461 40.764 157 80 1 149 305 168 311 3.60e-31 120
MsaG025351 MtrunA17_Chr4g0002851 35.762 151 80 1 177 327 65 198 3.21e-21 89.7
MsaG025351 MtrunA17_Chr8g0366751 36.196 163 70 5 147 284 451 604 2.72e-20 91.7
MsaG025351 MtrunA17_Chr7g0233441 33.775 151 91 1 177 327 57 198 7.19e-20 85.9
MsaG025351 MtrunA17_Chr4g0002831 31.098 164 102 3 165 327 53 206 3.20e-19 84.3
MsaG025351 MtrunA17_Chr1g0185621 33.333 183 104 5 155 324 476 653 3.36e-18 85.5
MsaG025351 MtrunA17_Chr5g0411341 34.810 158 87 2 147 288 482 639 8.82e-18 84.3
MsaG025351 MtrunA17_Chr7g0275821 37.705 122 51 3 155 266 253 359 9.69e-18 83.6
MsaG025351 MtrunA17_Chr7g0252041 30.481 187 110 4 154 326 286 466 9.47e-17 80.9
MsaG025351 MtrunA17_Chr8g0346161 30.636 173 115 2 155 322 292 464 1.28e-16 80.5
MsaG025351 MtrunA17_Chr8g0346151 36.029 136 71 4 155 278 280 411 1.94e-15 76.6
MsaG025351 MtrunA17_Chr8g0365711 25.146 171 122 2 138 302 228 398 7.75e-15 74.7
MsaG025351 MtrunA17_Chr1g0211081 32.836 134 81 3 86 218 256 381 3.06e-13 70.5
MsaG025351 MtrunA17_Chr7g0260841 34.146 123 54 3 145 263 342 441 4.41e-13 69.7
MsaG025351 MtrunA17_Chr3g0131691 29.560 159 97 4 154 299 298 454 8.49e-13 68.9
MsaG025351 MtrunA17_Chr4g0028071 31.206 141 82 4 156 287 151 285 1.38e-12 67.8
MsaG025351 MtrunA17_Chr5g0411541 26.596 282 170 9 68 325 47 315 1.70e-12 67.4
MsaG025351 MtrunA17_Chr8g0386921 28.313 166 83 4 155 287 407 569 2.28e-12 67.8
MsaG025351 MtrunA17_Chr3g0141091 29.379 177 106 4 150 325 169 327 5.62e-12 65.9
MsaG025351 MtrunA17_Chr2g0320291 30.714 140 84 4 156 289 135 267 1.54e-11 64.3
MsaG025351 MtrunA17_Chr2g0298751 24.352 193 130 5 132 309 29 220 2.19e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025351 AT4G37850.2 35.693 339 187 13 2 324 1 324 2.56e-48 165
MsaG025351 AT4G37850.1 35.693 339 187 13 2 324 1 324 2.56e-48 165
MsaG025351 AT2G22760.1 44.865 185 97 2 146 325 111 295 8.37e-48 163
MsaG025351 AT2G22760.2 46.341 164 84 1 146 305 111 274 2.58e-44 153
MsaG025351 AT2G22750.5 34.111 343 152 14 2 306 1 307 1.35e-42 150
MsaG025351 AT2G22750.3 34.111 343 152 14 2 306 5 311 1.39e-42 150
MsaG025351 AT2G22750.4 34.111 343 152 14 2 306 5 311 2.16e-42 150
MsaG025351 AT2G22750.2 46.328 177 68 4 146 306 118 283 8.44e-40 142
MsaG025351 AT2G22750.1 46.328 177 68 4 146 306 118 283 1.32e-39 142
MsaG025351 AT2G22770.1 39.810 211 109 3 132 324 108 318 5.51e-38 138
MsaG025351 AT4G17880.1 29.675 246 127 8 73 289 324 552 1.81e-20 92.4
MsaG025351 AT5G46760.1 34.356 163 80 4 145 289 402 555 3.09e-19 89.0
MsaG025351 AT1G32640.1 35.099 151 92 3 145 289 439 589 5.64e-17 82.0
MsaG025351 AT1G01260.1 31.361 169 87 4 150 313 429 573 3.48e-16 79.7
MsaG025351 AT1G01260.2 31.361 169 87 4 150 313 429 573 3.48e-16 79.7
MsaG025351 AT1G01260.3 31.361 169 87 4 150 313 429 573 3.48e-16 79.7
MsaG025351 AT2G46510.1 26.667 180 111 3 145 320 382 544 3.54e-16 79.7
MsaG025351 AT5G57150.5 26.344 186 117 3 132 302 32 212 1.59e-15 75.1
MsaG025351 AT5G57150.2 26.344 186 117 3 132 302 33 213 2.12e-15 74.7
MsaG025351 AT5G57150.3 26.344 186 117 3 132 302 33 213 2.41e-15 74.3
MsaG025351 AT5G57150.4 26.344 186 117 3 132 302 33 213 3.28e-15 74.7
MsaG025351 AT5G57150.1 26.344 186 117 3 132 302 32 212 3.75e-15 74.3
MsaG025351 AT1G12860.1 29.444 180 115 4 154 326 267 441 3.80e-15 76.3
MsaG025351 AT1G12860.2 31.373 153 98 3 154 299 267 419 7.89e-15 75.1
MsaG025351 AT4G09820.1 34.884 129 63 2 155 282 364 472 1.49e-14 74.7
MsaG025351 AT2G16910.1 28.070 171 97 5 155 299 315 485 8.36e-14 72.4
MsaG025351 AT4G29930.6 30.380 158 97 4 155 308 55 203 1.39e-13 69.7
MsaG025351 AT4G29930.2 29.936 157 96 4 155 308 55 200 1.58e-13 69.3
MsaG025351 AT4G29930.5 30.137 146 89 3 154 296 54 189 1.93e-13 69.3
MsaG025351 AT1G63650.3 28.571 196 102 7 155 324 406 589 5.26e-13 70.1
MsaG025351 AT1G63650.1 28.571 196 102 7 155 324 406 589 5.26e-13 70.1
MsaG025351 AT1G63650.2 28.571 196 102 7 155 324 406 589 5.26e-13 70.1
MsaG025351 AT3G26744.1 29.143 175 108 4 154 317 307 476 1.43e-12 68.6
MsaG025351 AT3G26744.4 29.143 175 108 4 154 317 307 476 1.43e-12 68.6
MsaG025351 AT3G26744.2 29.143 175 108 4 154 317 307 476 1.43e-12 68.6
MsaG025351 AT5G65640.1 28.889 180 112 5 150 325 174 341 3.66e-12 67.0
MsaG025351 AT3G26744.6 30.573 157 98 3 154 299 307 463 4.06e-12 67.4
MsaG025351 AT4G16430.1 45.333 75 37 1 145 215 307 381 5.45e-12 67.0
MsaG025351 AT4G00870.1 29.927 137 92 1 155 287 250 386 5.45e-12 66.6
MsaG025351 AT4G29930.1 26.705 176 106 4 155 308 55 229 1.03e-11 64.7
MsaG025351 AT4G29930.3 26.667 165 99 3 154 296 54 218 1.51e-11 64.3
MsaG025351 AT4G29930.7 26.667 165 99 3 154 296 54 218 1.51e-11 64.3
MsaG025351 AT5G41315.2 28.283 198 105 8 155 324 450 638 5.83e-11 63.9
MsaG025351 AT5G41315.1 28.283 198 105 8 155 324 442 630 5.85e-11 63.9
MsaG025351 AT5G41315.3 28.283 198 105 8 155 324 447 635 6.54e-11 63.9

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCCTTCAATGGTTAATTT+TGG 0.137197 5:-7135278 None:intergenic
GATACTCTTACTTCGATTTC+AGG 0.236620 5:-7134523 None:intergenic
GTTTCAACTGGGAAACAATT+TGG 0.250112 5:-7133308 None:intergenic
TACTTTGGACAGTGAGATTA+AGG 0.260165 5:-7134624 None:intergenic
TTCAGGAAGTGGTTGGTTAT+TGG 0.276191 5:-7134506 None:intergenic
GCTCTTTCAGCCATTGTTCC+TGG 0.288584 5:+7133677 MsaT025351.1:CDS
CCAAAGTTGTCGAATAATAT+TGG 0.304765 5:-7133257 None:intergenic
TCGAGCTTGAGCAGTGTTCC+TGG 0.329696 5:-7133600 None:intergenic
CATTGTTCCTGGCCTCAAAA+AGG 0.384959 5:+7133688 MsaT025351.1:CDS
TCATCAAGATGAGTTTCAAC+TGG 0.389714 5:-7133320 None:intergenic
CTTCCAGCTTTGGTTTCTCA+AGG 0.393979 5:+7133524 MsaT025351.1:CDS
AATGAGTTGAGGTGATGAAT+AGG 0.399012 5:-7133390 None:intergenic
TAAAATTGCTTAGAAGCAAT+TGG 0.399867 5:-7133437 None:intergenic
GTTGTTTCCAAAGGGCAAAA+AGG 0.400410 5:-7134650 None:intergenic
CCAATATTATTCGACAACTT+TGG 0.407380 5:+7133257 MsaT025351.1:CDS
AGTAGTATGCTTACAAGTTC+AGG 0.414356 5:-7132976 None:intergenic
AGAAGCAATTGGTGTTGAAC+TGG 0.425456 5:-7133426 None:intergenic
TGAGGTGATGAATAGGAAGA+AGG 0.434612 5:-7133383 None:intergenic
ATGGACAAAGCTTCTGTGTT+GGG 0.439391 5:+7134334 MsaT025351.1:CDS
TGTGACAGCAAAGGATCTCC+TGG 0.446189 5:+7135230 MsaT025351.1:CDS
CAAGAGAATCCATCGGGTAT+TGG 0.448559 5:-7133229 None:intergenic
TGAAAGAGCGATGAAACTTC+GGG 0.456547 5:-7133663 None:intergenic
GAGGTGATGAATAGGAAGAA+GGG 0.466954 5:-7133382 None:intergenic
GGACGTGCCGCTACGGTGCT+TGG 0.467945 5:+7134589 MsaT025351.1:CDS
ATCAACAATGTTGTTTCCAA+AGG 0.469768 5:-7134659 None:intergenic
TCAACAATGTTGTTTCCAAA+GGG 0.475298 5:-7134658 None:intergenic
TGATGTAACCATTGTTGCTC+AGG 0.479291 5:+7134678 MsaT025351.1:CDS
CTGAAAGAGCGATGAAACTT+CGG 0.488970 5:-7133664 None:intergenic
AAGCCTGTCGTATGCTTCCC+AGG 0.497417 5:-7135248 None:intergenic
CTTCGATTTCAGGAAGTGGT+TGG 0.508259 5:-7134513 None:intergenic
TAAAACCTAAAGTCGAGAAA+AGG 0.508413 5:+7133480 MsaT025351.1:CDS
TGTTCCTGGTCTGATTCACT+TGG 0.510038 5:-7133586 None:intergenic
CTTACTTCGATTTCAGGAAG+TGG 0.529255 5:-7134517 None:intergenic
TTTATTTACCTGAGCAACAA+TGG 0.540344 5:-7134686 None:intergenic
GAACCTTGAGAAACCAAAGC+TGG 0.540922 5:-7133527 None:intergenic
ACAAGTTCAGGCACATAGGT+GGG 0.548457 5:-7132964 None:intergenic
ACAAGCACGTTTGCAGACAC+TGG 0.553923 5:+7134384 MsaT025351.1:CDS
ACACAGTGGACGTGCCGCTA+CGG 0.562208 5:+7134582 MsaT025351.1:CDS
CAAGTTCAGGCACATAGGTG+GGG 0.574321 5:-7132963 None:intergenic
CTTCTTTAACCAATACCCGA+TGG 0.574424 5:+7133220 MsaT025351.1:CDS
AACTGGGAAACAATTTGGTG+TGG 0.582222 5:-7133303 None:intergenic
TCAAGCTCGAGAACATGTAA+TGG 0.585662 5:+7133613 MsaT025351.1:CDS
TACAAGTTCAGGCACATAGG+TGG 0.586428 5:-7132965 None:intergenic
GAGATGCAAGAGAATCCATC+GGG 0.590902 5:-7133235 None:intergenic
GCTTACAAGTTCAGGCACAT+AGG 0.592149 5:-7132968 None:intergenic
CTCATCTTGATGATCAAACA+AGG 0.597867 5:+7133330 MsaT025351.1:CDS
CATCAAGATGAGTTTCAACT+GGG 0.598938 5:-7133319 None:intergenic
TCTCCTGGGAAGCATACGAC+AGG 0.600421 5:+7135245 MsaT025351.1:CDS
GATGGACAAAGCTTCTGTGT+TGG 0.607222 5:+7134333 MsaT025351.1:intron
GTGACAGCAAAGGATCTCCT+GGG 0.607386 5:+7135231 MsaT025351.1:CDS
AGATCTCTTCACTTGAACTG+TGG 0.609751 5:-7134440 None:intergenic
GGAAAACTGTGTGACAGCAA+AGG 0.624039 5:+7135221 MsaT025351.1:CDS
GGAGATGCAAGAGAATCCAT+CGG 0.627162 5:-7133236 None:intergenic
TGTTCAAAAGAAATGAGTTG+AGG 0.643051 5:-7133401 None:intergenic
AAGTTCAGGCACATAGGTGG+GGG 0.650925 5:-7132962 None:intergenic
AATGGCCGAAAGAAAACGAA+GGG 0.657033 5:+7133631 MsaT025351.1:CDS
TAATTGGCCAAGCACCGTAG+CGG 0.678187 5:-7134596 None:intergenic
AGCACGTTTGCAGACACTGG+AGG 0.686426 5:+7134387 MsaT025351.1:CDS
ATAACCAAGTGAATCAGACC+AGG 0.687464 5:+7133582 MsaT025351.1:CDS
TAATGGCCGAAAGAAAACGA+AGG 0.695210 5:+7133630 MsaT025351.1:CDS
ATTCAATGTGACAAACACAG+TGG 0.762327 5:+7134568 MsaT025351.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 7132946 7135287 7132946 ID=MsaG025351
Chr5 mRNA 7132946 7135287 7132946 ID=MsaT025351.1;Parent=MsaG025351
Chr5 exon 7132946 7132984 7132946 ID=MsaT025351.1.exon1;Parent=MsaT025351.1
Chr5 CDS 7132946 7132984 7132946 ID=cds.MsaT025351.1;Parent=MsaT025351.1
Chr5 exon 7133203 7133709 7133203 ID=MsaT025351.1.exon2;Parent=MsaT025351.1
Chr5 CDS 7133203 7133709 7133203 ID=cds.MsaT025351.1;Parent=MsaT025351.1
Chr5 exon 7134334 7134699 7134334 ID=MsaT025351.1.exon3;Parent=MsaT025351.1
Chr5 CDS 7134334 7134699 7134334 ID=cds.MsaT025351.1;Parent=MsaT025351.1
Chr5 exon 7135213 7135287 7135213 ID=MsaT025351.1.exon4;Parent=MsaT025351.1
Chr5 CDS 7135213 7135287 7135213 ID=cds.MsaT025351.1;Parent=MsaT025351.1
Gene Sequence

>MsaT025351.1

ATGATGCAAATTATGTCCCCCACCTATGTGCCTGAACTTGGAATGGAGGATCTCAACTTCTTTAACCAATACCCGATGGATTCTCTTGCATCTCCAATATTATTCGACAACTTTGGCTTTCACTTTGATGACAACGAAACCACACCAAATTGTTTCCCAGTTGAAACTCATCTTGATGATCAAACAAGGCCAACCAAGAAGATCAAAACATCGATAAACCCTTCTTCCTATTCATCACCTCAACTCATTTCTTTTGAACACTCCAGTTCAACACCAATTGCTTCTAAGCAATTTTATAACCTTGATTATTCCGATGTAAAACCTAAAGTCGAGAAAAGGTGTAATGATAACAAAGATTTTCTTCCAGCTTTGGTTTCTCAAGGTTCTTATGAAGATCAAAAAATATTTTCAAATTATGATAACCAAGTGAATCAGACCAGGAACACTGCTCAAGCTCGAGAACATGTAATGGCCGAAAGAAAACGAAGGGAAAAGCTTACCCGAAGTTTCATCGCTCTTTCAGCCATTGTTCCTGGCCTCAAAAAGATGGACAAAGCTTCTGTGTTGGGAGATGCTATCAAGTACATGAAACAACTACAAGCACGTTTGCAGACACTGGAGGAACAAGCTGAAGACAACAAAAAAACTGGATCCACAGTTCAAGTGAAGAGATCTATTATCTTCACTAATGATGACGATGATGATGATGATAGCAACTCCAATAACCAACCACTTCCTGAAATCGAAGTAAGAGTATCAAGCAAAGATGTACTCATCAAGATTCAATGTGACAAACACAGTGGACGTGCCGCTACGGTGCTTGGCCAATTAGAAAACCTTAATCTCACTGTCCAAAGTAGTACCTTTTTGCCCTTTGGAAACAACATTGTTGATGTAACCATTGTTGCTCAGATGAACAAGGAAAACTGTGTGACAGCAAAGGATCTCCTGGGAAGCATACGACAGGCTTTAATCATCCAAAATTAA

Protein sequence

>MsaT025351.1

MMQIMSPTYVPELGMEDLNFFNQYPMDSLASPILFDNFGFHFDDNETTPNCFPVETHLDDQTRPTKKIKTSINPSSYSSPQLISFEHSSSTPIASKQFYNLDYSDVKPKVEKRCNDNKDFLPALVSQGSYEDQKIFSNYDNQVNQTRNTAQAREHVMAERKRREKLTRSFIALSAIVPGLKKMDKASVLGDAIKYMKQLQARLQTLEEQAEDNKKTGSTVQVKRSIIFTNDDDDDDDSNSNNQPLPEIEVRVSSKDVLIKIQCDKHSGRAATVLGQLENLNLTVQSSTFLPFGNNIVDVTIVAQMNKENCVTAKDLLGSIRQALIIQN*