AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010828

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010828 MtrunA17_Chr2g0329591 97.690 303 6 1 1 303 9 310 0.0 600
MsaG010828 MtrunA17_Chr2g0329591 89.189 74 8 0 299 372 379 452 1.06e-43 157
MsaG010828 MtrunA17_Chr5g0401131 57.196 271 104 3 61 320 108 377 1.15e-100 306
MsaG010828 MtrunA17_Chr5g0401131 47.297 74 34 3 300 372 422 491 2.68e-15 77.0
MsaG010828 MtrunA17_Chr4g0054071 65.455 110 38 0 63 172 129 238 5.77e-46 157
MsaG010828 MtrunA17_Chr4g0053901 28.538 424 186 13 60 372 52 469 6.11e-37 139
MsaG010828 MtrunA17_Chr1g0159461 32.927 246 152 4 66 303 224 464 2.31e-33 130
MsaG010828 MtrunA17_Chr3g0125811 31.301 246 156 4 66 303 202 442 3.23e-31 124
MsaG010828 MtrunA17_Chr2g0319091 28.428 299 189 6 20 303 163 451 7.51e-30 120
MsaG010828 MtrunA17_Chr5g0401421 25.532 423 190 13 66 372 34 447 1.20e-29 118
MsaG010828 MtrunA17_Chr5g0447691 31.579 247 152 5 67 303 177 416 3.52e-29 118
MsaG010828 MtrunA17_Chr7g0245601 29.787 235 154 5 70 303 441 665 5.37e-28 115
MsaG010828 MtrunA17_Chr5g0445331 32.143 252 150 6 66 303 160 404 1.02e-27 114
MsaG010828 MtrunA17_Chr3g0101141 30.545 275 173 5 66 327 174 443 4.36e-27 112
MsaG010828 MtrunA17_Chr4g0038761 29.098 244 148 9 70 303 87 315 4.80e-26 108
MsaG010828 MtrunA17_Chr4g0076091 31.325 249 153 6 66 303 174 415 1.19e-25 108
MsaG010828 MtrunA17_Chr3g0110971 31.250 240 147 5 68 303 220 445 5.37e-25 106
MsaG010828 MtrunA17_Chr3g0114841 30.579 242 149 8 77 303 134 371 1.06e-24 105
MsaG010828 MtrunA17_Chr8g0357601 30.328 244 161 4 68 303 183 425 1.76e-24 104
MsaG010828 MtrunA17_Chr5g0424131 27.966 354 198 14 46 362 100 433 1.95e-24 104
MsaG010828 MtrunA17_Chr8g0344101 29.588 267 156 8 59 301 215 473 3.94e-24 103
MsaG010828 MtrunA17_Chr7g0224271 27.092 251 163 4 67 303 300 544 9.14e-24 103
MsaG010828 MtrunA17_Chr1g0183641 27.393 303 196 10 14 313 78 359 1.10e-23 102
MsaG010828 MtrunA17_Chr4g0057291 26.230 244 166 5 67 303 292 528 1.42e-23 102
MsaG010828 MtrunA17_Chr2g0328341 33.654 208 125 4 67 271 272 469 2.61e-23 101
MsaG010828 MtrunA17_Chr4g0039661 31.174 247 151 5 66 303 192 428 1.15e-22 99.4
MsaG010828 MtrunA17_Chr4g0038851 30.172 232 150 5 56 285 37 258 5.38e-22 97.1
MsaG010828 MtrunA17_Chr4g0031741 28.571 238 154 6 67 296 284 513 8.38e-22 97.1
MsaG010828 MtrunA17_Chr2g0328361 30.672 238 152 5 67 298 274 504 1.76e-21 96.3
MsaG010828 MtrunA17_Chr4g0057891 25.763 295 191 8 60 337 142 425 2.24e-21 95.5
MsaG010828 MtrunA17_Chr2g0290241 27.645 293 187 8 31 303 10 297 3.01e-21 94.7
MsaG010828 MtrunA17_Chr5g0396491 26.522 230 159 4 56 284 45 265 3.12e-21 94.7
MsaG010828 MtrunA17_Chr8g0376381 28.235 255 156 7 68 313 170 406 1.04e-20 93.6
MsaG010828 MtrunA17_Chr7g0238891 26.740 273 181 6 36 296 339 604 1.94e-20 93.2
MsaG010828 MtrunA17_Chr2g0328391 25.896 251 169 5 57 296 289 533 3.20e-20 92.4
MsaG010828 MtrunA17_Chr2g0328381 29.237 236 154 4 67 296 275 503 1.03e-19 90.9
MsaG010828 MtrunA17_Chr4g0031701 26.022 269 181 8 42 296 226 490 2.94e-19 89.4
MsaG010828 MtrunA17_Chr4g0031711 26.471 238 166 4 67 296 361 597 3.84e-19 89.4
MsaG010828 MtrunA17_Chr2g0306641 28.230 209 132 4 103 303 163 361 4.42e-19 88.6
MsaG010828 MtrunA17_Chr4g0031721 26.471 238 162 4 67 296 316 548 3.87e-18 86.3
MsaG010828 MtrunA17_Chr4g0031731 24.908 273 183 8 42 298 226 492 1.72e-17 84.0
MsaG010828 MtrunA17_Chr3g0085681 26.840 231 159 4 56 285 14 235 2.90e-17 82.8
MsaG010828 MtrunA17_Chr2g0294461 26.908 249 165 8 68 303 211 455 3.75e-17 82.8
MsaG010828 MtrunA17_Chr2g0328411 27.711 249 142 8 67 296 289 518 7.97e-17 82.0
MsaG010828 MtrunA17_Chr2g0328431 26.471 238 159 7 67 296 289 518 2.57e-16 80.5
MsaG010828 MtrunA17_Chr2g0294471 26.210 248 166 8 68 303 205 447 3.42e-16 80.1
MsaG010828 MtrunA17_Chr7g0230731 27.064 218 147 4 84 298 389 597 1.03e-15 79.0
MsaG010828 MtrunA17_Chr7g0230771 26.852 216 146 4 86 298 394 600 6.80e-15 76.3
MsaG010828 MtrunA17_Chr2g0328401 25.311 241 158 7 67 296 290 519 9.22e-15 75.9
MsaG010828 MtrunA17_Chr8g0383981 27.885 208 124 8 103 303 177 365 1.72e-13 71.6
MsaG010828 MtrunA17_Chr1g0200401 26.291 213 139 6 98 303 111 312 3.08e-13 70.9
MsaG010828 MtrunA17_Chr4g0012071 23.529 221 156 5 86 302 215 426 2.43e-12 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010828 AT4G37650.1 55.906 254 102 3 60 303 139 392 6.37e-96 296
MsaG010828 AT4G37650.1 48.649 74 33 4 301 372 460 530 5.01e-15 76.6
MsaG010828 AT3G49950.1 27.960 397 192 11 60 372 23 409 2.35e-42 153
MsaG010828 AT3G13840.1 28.429 401 209 11 39 371 120 510 1.43e-32 128
MsaG010828 AT5G48150.1 32.197 264 154 6 52 303 112 362 5.64e-32 126
MsaG010828 AT5G48150.4 32.197 264 154 6 52 303 112 362 5.64e-32 126
MsaG010828 AT5G48150.2 32.197 264 154 6 52 303 112 362 5.64e-32 126
MsaG010828 AT5G48150.3 32.197 264 154 6 52 303 112 362 5.64e-32 126
MsaG010828 AT2G04890.1 32.510 243 148 5 67 303 53 285 1.09e-31 124
MsaG010828 AT1G50600.3 33.206 262 157 6 50 303 147 398 2.65e-30 122
MsaG010828 AT1G50600.2 33.206 262 157 6 50 303 222 473 5.05e-30 121
MsaG010828 AT1G50600.1 33.206 262 157 6 50 303 218 469 5.51e-30 121
MsaG010828 AT3G54220.1 31.890 254 157 7 55 303 281 523 1.57e-29 120
MsaG010828 AT1G21450.1 29.137 278 178 6 37 303 195 464 2.12e-27 114
MsaG010828 AT4G17230.1 30.242 248 156 6 66 303 157 397 3.84e-24 103
MsaG010828 AT4G17230.2 30.242 248 156 6 66 303 157 397 3.84e-24 103
MsaG010828 AT4G08250.1 28.920 287 168 11 76 346 118 384 2.66e-23 101
MsaG010828 AT1G50420.1 29.439 214 145 2 58 271 48 255 3.41e-23 100
MsaG010828 AT1G63100.2 26.033 242 168 4 67 303 277 512 5.93e-23 100
MsaG010828 AT1G63100.1 26.033 242 168 4 67 303 252 487 6.06e-23 100
MsaG010828 AT5G41920.1 27.208 283 183 8 36 303 1 275 5.25e-22 97.1
MsaG010828 AT5G59450.1 28.807 243 161 4 67 301 227 465 2.65e-21 95.9
MsaG010828 AT3G03450.1 28.333 240 161 6 68 303 184 416 5.50e-21 94.7
MsaG010828 AT5G66770.1 28.938 273 169 8 43 303 193 452 6.00e-21 94.7
MsaG010828 AT2G01570.1 28.627 255 160 6 68 313 225 466 1.22e-20 94.0
MsaG010828 AT1G66350.1 29.583 240 150 7 68 303 156 380 1.75e-20 93.2
MsaG010828 AT1G14920.1 28.395 243 154 5 68 303 173 402 7.51e-20 91.3
MsaG010828 AT3G46600.2 27.572 243 162 4 67 301 4 240 1.90e-19 89.4
MsaG010828 AT5G17490.1 26.441 295 188 9 68 357 161 431 2.95e-19 89.7
MsaG010828 AT3G46600.1 27.572 243 162 4 67 301 212 448 3.09e-19 89.7
MsaG010828 AT3G46600.3 25.979 281 186 5 29 301 150 416 4.34e-19 89.4
MsaG010828 AT1G07530.1 25.746 268 175 7 38 296 377 629 1.34e-18 88.2
MsaG010828 AT2G29060.1 27.917 240 158 5 67 296 321 555 2.49e-18 87.0
MsaG010828 AT2G29060.2 27.917 240 158 5 67 296 284 518 2.52e-18 87.0
MsaG010828 AT1G07520.1 27.917 240 162 5 67 296 318 556 5.09e-18 86.3
MsaG010828 AT1G07520.3 27.917 240 162 5 67 296 319 557 5.14e-18 86.3
MsaG010828 AT1G07520.2 27.917 240 162 5 67 296 154 392 6.09e-18 85.5
MsaG010828 AT1G07520.4 27.917 240 162 5 67 296 154 392 6.09e-18 85.5
MsaG010828 AT2G37650.2 26.141 241 163 6 67 299 335 568 6.17e-18 85.9
MsaG010828 AT2G37650.1 26.141 241 163 6 67 299 347 580 6.70e-18 85.9
MsaG010828 AT2G29065.1 26.337 243 163 6 67 296 252 491 6.31e-17 82.8
MsaG010828 AT1G55580.1 30.387 181 116 4 133 303 135 315 1.11e-16 81.6
MsaG010828 AT3G50650.1 27.442 215 133 6 98 303 206 406 2.23e-13 71.6
MsaG010828 AT5G52510.1 25.954 262 159 7 64 303 265 513 6.17e-13 70.5
MsaG010828 AT4G00150.1 28.270 237 136 9 72 298 212 424 1.17e-12 69.7

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGGAGATGATCATATTTC+AGG 0.247824 2:-78309331 MsaT010828.1:CDS
TGCACACTCTTTGAGAAGTT+TGG 0.280317 2:+78310393 None:intergenic
AACGAGTTATCTTCACCTTA+TGG 0.280967 2:-78310316 MsaT010828.1:CDS
GGAGAAATTTGCTAGGCTTA+TGG 0.293692 2:-78309903 MsaT010828.1:CDS
GAGAAATTTGCTAGGCTTAT+GGG 0.296804 2:-78309902 MsaT010828.1:CDS
GTAAGTCCATGGACAACTTT+TGG 0.310503 2:-78310139 MsaT010828.1:CDS
GAAGGAGGAGCCAGTTGTTT+GGG 0.360276 2:-78309293 MsaT010828.1:CDS
GGAAGGAGGAGCCAGTTGTT+TGG 0.371169 2:-78309294 MsaT010828.1:CDS
GCCTACTCTTCTAGAAGCTT+TGG 0.372153 2:-78310023 MsaT010828.1:CDS
CATGTTGATGCCCAAACAAC+TGG 0.384320 2:+78309283 None:intergenic
TGACAACAATTGTGAGCTTA+AGG 0.423250 2:+78309975 None:intergenic
GTATTCTTTGAAGTATTGTA+AGG 0.423643 2:+78310574 None:intergenic
TTCTAGTGTTGTTGTTATGA+AGG 0.438949 2:-78309942 MsaT010828.1:CDS
CTAATAACGTTCAACTCAAA+AGG 0.439883 2:+78309875 None:intergenic
TGATGTATGCATCATGTCTA+TGG 0.450632 2:+78310492 None:intergenic
GCAATAGCTTTGAATTGTGT+TGG 0.455338 2:-78309794 MsaT010828.1:CDS
ACGTCAAAGCGTTGCTAAAG+AGG 0.462927 2:-78309384 MsaT010828.1:CDS
GCAACACACTTTGTACTCAA+TGG 0.478846 2:-78310045 MsaT010828.1:CDS
GTCGTGATCAAGATGGTAAA+TGG 0.481733 2:-78310420 MsaT010828.1:CDS
GTTGTTGTTATGAAGGAAGT+TGG 0.482632 2:-78309935 MsaT010828.1:CDS
AACAATGGTTTGAAAGGCTT+AGG 0.484650 2:-78309450 MsaT010828.1:CDS
TTTGGACACGTAGCATCAAA+TGG 0.490444 2:-78310121 MsaT010828.1:CDS
ACACTCTTTGAGAAGTTTGG+AGG 0.491229 2:+78310396 None:intergenic
GAAGGAAGTTGGTCAAAGAA+TGG 0.494144 2:-78309924 MsaT010828.1:CDS
TCAACAAATGTCACAACTCT+AGG 0.495147 2:+78309707 None:intergenic
GAGGAAAACAATGGTTTGAA+AGG 0.495452 2:-78309456 MsaT010828.1:CDS
GTGACATTTGTTGAGGAAGA+AGG 0.504902 2:-78309698 MsaT010828.1:intron
TGGATTTAGTGATGATGTTG+TGG 0.508345 2:-78309410 MsaT010828.1:CDS
GTGACCAGATTGTGTTGCCT+TGG 0.516301 2:+78310246 None:intergenic
GAATTAACGAAAGAGAGATT+AGG 0.532150 2:-78309833 MsaT010828.1:CDS
TGGTCACTTGTTGTGCCTCA+AGG 0.536151 2:-78309349 MsaT010828.1:CDS
CGTTTAACATCCAAAGAAGA+TGG 0.546279 2:+78310335 None:intergenic
GAGAGATTAGGAATTCAAGA+AGG 0.556850 2:-78309821 MsaT010828.1:CDS
GTTAATACTCAAGTTTCAAG+AGG 0.563644 2:-78310161 MsaT010828.1:CDS
AAAGAATGGAGAAATTTGCT+AGG 0.565724 2:-78309910 MsaT010828.1:CDS
CAGTTGTTTGGGCATCAACA+TGG 0.572778 2:-78309282 MsaT010828.1:CDS
TAGAGTTGTGACATTTGTTG+AGG 0.579320 2:-78309705 MsaT010828.1:CDS
ACGTGTCCAAAAGTTGTCCA+TGG 0.583351 2:+78310133 None:intergenic
TTCTTGCTGAATCAAAAGAG+TGG 0.585703 2:+78310185 None:intergenic
TTTCAGGAATGTACCTCACA+TGG 0.601917 2:-78309315 MsaT010828.1:CDS
TTAACATCCAAAGAAGATGG+TGG 0.611767 2:+78310338 None:intergenic
AGTTTCAAGAGGTAAGTCCA+TGG 0.613365 2:-78310150 MsaT010828.1:CDS
GCCAAAGCTTCTAGAAGAGT+AGG 0.613903 2:+78310022 None:intergenic
TAAAGAGGTATCAAGCTGGT+TGG 0.616512 2:-78309369 MsaT010828.1:CDS
AGGAATGTACCTCACATGGA+AGG 0.622436 2:-78309311 MsaT010828.1:CDS
TGTCATCGTCGTGATCAAGA+TGG 0.626860 2:-78310427 MsaT010828.1:CDS
TAAAAGAGAGAGGAAAACAA+TGG 0.632956 2:-78309465 MsaT010828.1:intron
CTGGCTCCTCCTTCCATGTG+AGG 0.635263 2:+78309302 None:intergenic
TTGCTAAAGAGGTATCAAGC+TGG 0.647082 2:-78309373 MsaT010828.1:CDS
AATGTACCTCACATGGAAGG+AGG 0.650550 2:-78309308 MsaT010828.1:CDS
GAAATATGATCATCTCCTTG+AGG 0.654963 2:+78309334 None:intergenic
ACAATTGTGAGCTTAAGGTG+AGG 0.710121 2:+78309980 None:intergenic
ACATCATCACTAAATCCACA+AGG 0.718156 2:+78309415 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 78309273 78310608 78309273 ID=MsaG010828
Chr2 mRNA 78309273 78310608 78309273 ID=MsaT010828.1;Parent=MsaG010828
Chr2 exon 78309273 78309481 78309273 ID=MsaT010828.1.exon2;Parent=MsaT010828.1
Chr2 CDS 78309273 78309481 78309273 ID=cds.MsaT010828.1;Parent=MsaT010828.1
Chr2 exon 78309699 78310608 78309699 ID=MsaT010828.1.exon1;Parent=MsaT010828.1
Chr2 CDS 78309699 78310608 78309699 ID=cds.MsaT010828.1;Parent=MsaT010828.1
Gene Sequence

>MsaT010828.1

ATGGAGATAAGTCCTTACAATACTTCAAAGAATACAACGCACTTGAAGAAGTTGAACCATCAAAATAATAGCTATTTTCTTCATGAAGCTTCAACCATAGACATGATGCATACATCATCAAGCAATCATCAAACATCTTCAGATAATTCTAGTGAGACATGTCATCGTCGTGATCAAGATGGTAAATGGTCCTCCAAACTTCTCAAAGAGTGTGCAATTGCAATATCTAATAGAGACTCATCAAAAATCCACCATCTTCTTTGGATGTTAAACGAGTTATCTTCACCTTATGGAGATATTGATCAAAAACTAGCTTCATATTTTCTACAAGCTCTATTTTCCAAGGCAACACAATCTGGTCACAAGTGTTACAAAACACTATCTTCAATCGCTTACAAAAACCACTCTTTTGATTCAGCAAGAAAGTTAATACTCAAGTTTCAAGAGGTAAGTCCATGGACAACTTTTGGACACGTAGCATCAAATGGTGCTATTTTAGAAGCTTTGGAAGGAGAGAAAAAACTTCATATAATTGATATTAGCAACACACTTTGTACTCAATGGCCTACTCTTCTAGAAGCTTTGGCAACAAGAAATGATGAAACTCCTCACCTTAAGCTCACAATTGTTGTCACAAATAATAGTTCTAGTGTTGTTGTTATGAAGGAAGTTGGTCAAAGAATGGAGAAATTTGCTAGGCTTATGGGAGTACCTTTTGAGTTGAACGTTATTAGTGATTTGAAACATATACGAGAATTAACGAAAGAGAGATTAGGAATTCAAGAAGGTGAAGCAATAGCTTTGAATTGTGTTGGAGCATTGAGAAAAGTTGAAGTTGAAGAAAGAGAAAGTGTGATTCAATTTTTCAAATCACTTAGTCCTAGAGTTGTGACATTTGTTGAGGAAGAAGAGAGAGGAAAACAATGGTTTGAAAGGCTTAGGAATGAATTTTCACCTTGTGGATTTAGTGATGATGTTGTGGATGACGTCAAAGCGTTGCTAAAGAGGTATCAAGCTGGTTGGTCACTTGTTGTGCCTCAAGGAGATGATCATATTTCAGGAATGTACCTCACATGGAAGGAGGAGCCAGTTGTTTGGGCATCAACATGGAAACCCTAG
Protein sequence

>MsaT010828.1

MEISPYNTSKNTTHLKKLNHQNNSYFLHEASTIDMMHTSSSNHQTSSDNSSETCHRRDQDGKWSSKLLKECAIAISNRDSSKIHHLLWMLNELSSPYGDIDQKLASYFLQALFSKATQSGHKCYKTLSSIAYKNHSFDSARKLILKFQEVSPWTTFGHVASNGAILEALEGEKKLHIIDISNTLCTQWPTLLEALATRNDETPHLKLTIVVTNNSSSVVVMKEVGQRMEKFARLMGVPFELNVISDLKHIRELTKERLGIQEGEAIALNCVGALRKVEVEERESVIQFFKSLSPRVVTFVEEEERGKQWFERLRNEFSPCGFSDDVVDDVKALLKRYQAGWSLVVPQGDDHISGMYLTWKEEPVVWASTWKP*