AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025350

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025350 MtrunA17_Chr5g0400661 87.393 349 22 5 1 342 1 334 0.0 591
MsaG025350 MtrunA17_Chr4g0054571 46.893 354 128 11 1 342 24 329 5.50e-81 249
MsaG025350 MtrunA17_Chr2g0280161 42.034 295 131 9 62 338 74 346 1.90e-56 187
MsaG025350 MtrunA17_Chr4g0049331 44.151 265 106 8 86 341 75 306 3.80e-54 180
MsaG025350 MtrunA17_Chr2g0333621 40.741 270 128 8 75 342 72 311 1.38e-51 173
MsaG025350 MtrunA17_Chr5g0400621 40.484 289 125 7 61 342 81 329 2.96e-49 167
MsaG025350 MtrunA17_Chr4g0054581 35.657 373 193 11 6 342 13 374 1.93e-48 167
MsaG025350 MtrunA17_Chr4g0054561 39.298 285 116 11 64 341 90 324 9.64e-48 164
MsaG025350 MtrunA17_Chr4g0054551 39.716 282 119 9 64 341 90 324 9.31e-47 161
MsaG025350 MtrunA17_Chr8g0336681 37.262 263 142 7 78 338 90 331 2.44e-46 160
MsaG025350 MtrunA17_Chr4g0002801 38.722 266 132 5 80 342 93 330 3.22e-45 157
MsaG025350 MtrunA17_Chr2g0333641 40.392 255 126 7 87 341 78 306 3.59e-45 156
MsaG025350 MtrunA17_Chr4g0002781 38.433 268 134 7 80 342 108 349 3.06e-44 155
MsaG025350 MtrunA17_Chr2g0307131 43.077 195 96 2 145 338 167 347 3.80e-43 152
MsaG025350 MtrunA17_Chr6g0468491 35.144 313 152 11 34 339 38 306 1.07e-42 150
MsaG025350 MtrunA17_Chr5g0400671 35.644 303 147 10 59 342 50 323 6.10e-42 148
MsaG025350 MtrunA17_Chr2g0307141 42.781 187 94 2 152 338 178 351 1.31e-41 148
MsaG025350 MtrunA17_Chr5g0400641 47.337 169 76 2 160 328 1 156 1.32e-41 142
MsaG025350 MtrunA17_Chr4g0054621 38.710 217 107 4 130 342 143 337 2.02e-39 142
MsaG025350 MtrunA17_Chr4g0033291 40.092 217 109 4 126 342 129 324 2.33e-39 142
MsaG025350 MtrunA17_Chr7g0225901 37.500 224 121 5 102 323 35 241 1.41e-37 135
MsaG025350 MtrunA17_Chr4g0033391 38.537 205 107 4 141 342 128 316 1.42e-37 137
MsaG025350 MtrunA17_Chr2g0333611 40.526 190 92 4 156 342 44 215 4.40e-37 132
MsaG025350 MtrunA17_Chr7g0249811 35.135 259 122 5 85 342 115 328 1.70e-36 134
MsaG025350 MtrunA17_Chr4g0033281 32.493 357 172 12 7 342 13 321 1.59e-34 129
MsaG025350 MtrunA17_Chr6g0468461 30.595 353 164 10 2 322 8 311 9.39e-33 124
MsaG025350 MtrunA17_Chr2g0333541 39.459 185 99 3 157 340 94 266 7.13e-32 120
MsaG025350 MtrunA17_Chr7g0233441 37.736 159 76 2 183 341 60 195 6.77e-25 100
MsaG025350 MtrunA17_Chr4g0002831 37.143 175 85 5 168 341 53 203 1.05e-23 97.1
MsaG025350 MtrunA17_Chr4g0002851 34.483 174 82 3 168 341 54 195 2.46e-23 95.9
MsaG025350 MtrunA17_Chr7g0275821 31.333 150 78 3 157 304 252 378 1.72e-16 80.1
MsaG025350 MtrunA17_Chr7g0260841 58.065 62 25 1 157 217 355 416 2.53e-16 79.7
MsaG025350 MtrunA17_Chr1g0185621 50.794 63 31 0 157 219 475 537 1.07e-14 75.1
MsaG025350 MtrunA17_Chr8g0366751 45.833 72 39 0 139 210 444 515 9.99e-14 72.0
MsaG025350 MtrunA17_Chr8g0346161 38.710 93 52 2 123 215 262 349 2.42e-13 70.9
MsaG025350 MtrunA17_Chr3g0131691 29.444 180 108 6 143 316 288 454 2.56e-13 70.9
MsaG025350 MtrunA17_Chr7g0273081 24.201 219 154 4 130 341 90 303 4.51e-13 68.9
MsaG025350 MtrunA17_Chr5g0411341 40.909 88 48 1 123 210 463 546 1.87e-12 68.2
MsaG025350 MtrunA17_Chr7g0270871 44.118 68 38 0 142 209 197 264 1.15e-11 65.1
MsaG025350 MtrunA17_Chr7g0252041 25.000 172 102 4 158 316 287 444 1.30e-11 65.5
MsaG025350 MtrunA17_Chr8g0346151 35.366 82 50 1 134 215 259 337 1.95e-11 64.7
MsaG025350 MtrunA17_Chr1g0211081 27.957 186 114 6 150 315 310 495 2.95e-11 64.3
MsaG025350 MtrunA17_Chr4g0028071 28.169 142 86 4 159 298 151 278 3.25e-11 63.5
MsaG025350 MtrunA17_Chr8g0386921 22.705 207 128 3 117 303 371 565 5.00e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025350 AT4G37850.2 38.329 347 172 14 9 341 6 324 1.75e-49 169
MsaG025350 AT4G37850.1 38.329 347 172 14 9 341 6 324 1.75e-49 169
MsaG025350 AT2G22760.1 44.211 190 93 4 155 342 117 295 5.64e-45 156
MsaG025350 AT2G22750.2 47.783 203 94 4 142 341 108 301 1.83e-43 152
MsaG025350 AT2G22750.3 38.889 342 178 9 9 341 10 329 3.64e-43 152
MsaG025350 AT2G22750.5 38.889 342 178 9 9 341 6 325 3.68e-43 152
MsaG025350 AT2G22750.1 47.783 203 93 5 142 341 108 300 5.37e-42 148
MsaG025350 AT2G22750.4 38.889 342 177 10 9 341 10 328 8.80e-42 148
MsaG025350 AT2G22770.1 43.085 188 105 1 156 341 131 318 5.57e-40 143
MsaG025350 AT2G22760.2 44.970 169 81 3 155 322 117 274 2.66e-39 140
MsaG025350 AT2G46510.1 47.297 74 39 0 139 212 377 450 1.91e-16 80.9
MsaG025350 AT1G32640.1 31.000 200 113 6 139 328 434 618 2.76e-15 77.4
MsaG025350 AT1G01260.1 39.241 79 48 0 137 215 413 491 4.43e-14 73.6
MsaG025350 AT1G01260.2 39.241 79 48 0 137 215 413 491 4.43e-14 73.6
MsaG025350 AT1G01260.3 39.241 79 48 0 137 215 413 491 4.43e-14 73.6
MsaG025350 AT4G16430.1 40.476 84 46 1 131 214 298 377 1.71e-13 71.6
MsaG025350 AT4G09820.1 29.801 151 73 2 153 303 359 476 2.32e-13 71.2
MsaG025350 AT5G41315.3 26.144 153 103 2 157 299 446 598 6.47e-13 70.1
MsaG025350 AT5G41315.2 26.144 153 103 2 157 299 449 601 6.66e-13 70.1
MsaG025350 AT5G41315.1 26.144 153 103 2 157 299 441 593 6.68e-13 70.1
MsaG025350 AT1G12860.2 28.834 163 101 5 158 316 268 419 9.50e-13 69.3
MsaG025350 AT1G12860.1 28.834 163 101 5 158 316 268 419 1.26e-12 68.9
MsaG025350 AT3G26744.6 27.273 165 105 4 158 316 308 463 2.30e-12 68.2
MsaG025350 AT3G26744.1 27.273 165 105 4 158 316 308 463 2.48e-12 68.2
MsaG025350 AT3G26744.4 27.273 165 105 4 158 316 308 463 2.48e-12 68.2
MsaG025350 AT3G26744.2 27.273 165 105 4 158 316 308 463 2.48e-12 68.2
MsaG025350 AT5G46760.1 30.263 152 83 4 157 301 415 550 3.68e-12 67.8
MsaG025350 AT4G17880.1 41.250 80 43 1 131 210 394 469 6.90e-12 67.0
MsaG025350 AT4G29930.1 25.000 208 142 6 144 341 39 242 1.16e-11 64.7
MsaG025350 AT1G63650.3 26.351 148 104 2 157 299 405 552 1.47e-11 65.9
MsaG025350 AT1G63650.1 26.351 148 104 2 157 299 405 552 1.47e-11 65.9
MsaG025350 AT1G63650.2 26.351 148 104 2 157 299 405 552 1.47e-11 65.9
MsaG025350 AT5G57150.3 27.979 193 105 6 144 318 41 217 2.16e-11 63.2
MsaG025350 AT2G16910.1 26.786 168 90 4 158 304 315 470 2.60e-11 65.1
MsaG025350 AT5G57150.2 27.320 194 107 6 144 319 41 218 2.64e-11 63.2
MsaG025350 AT3G06120.1 29.648 199 105 8 158 332 3 190 4.70e-11 62.0

Find 51 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGTGATCTTGAGCATTTC+TGG 0.145443 5:-7103718 None:intergenic
AGTAGTTGTGCATTGCTATT+TGG 0.235575 5:+7104267 MsaT025350.1:CDS
TTCAACATTGGTTCTAGTTT+TGG 0.266677 5:-7103561 None:intergenic
ATGGATAAGGCTTCTGTATT+AGG 0.299166 5:+7103916 MsaT025350.1:CDS
CTCTCTTGAATATTGCGTTT+TGG 0.303171 5:-7103675 None:intergenic
TCAGACACCTCATCAAATTC+TGG 0.305371 5:+7104069 MsaT025350.1:CDS
ACTCCTTCCAGACTTGAAAA+AGG 0.315242 5:+7103797 MsaT025350.1:CDS
GACACTCTTGCCTCACCTTC+AGG 0.329256 5:-7104147 None:intergenic
GGGAAATCTTTAACCTCAAA+AGG 0.344535 5:+7103627 MsaT025350.1:CDS
TTGGTCTTAAGTGTCTTTGT+AGG 0.346951 5:-7103453 None:intergenic
CAGATTCTACGTTGTTCCTT+TGG 0.354402 5:-7103999 None:intergenic
GACAAGTTGGTTGTGTGATT+TGG 0.403546 5:+7103189 MsaT025350.1:CDS
GATGAAGATTCTCTATCTCT+TGG 0.405403 5:-7104233 None:intergenic
CCTTCAGGCAGTGACCTACT+TGG 0.422003 5:-7104132 None:intergenic
CAAAGCAAAGAATGTAAGAA+TGG 0.443123 5:-7103521 None:intergenic
GATTCAACTTTGAAACCAAA+AGG 0.445350 5:+7103588 MsaT025350.1:CDS
GGAATTGCTCATAGTGTTTG+AGG 0.462284 5:-7103403 None:intergenic
GTACCCTATGTTTGAAGGGT+TGG 0.464961 5:-7103472 None:intergenic
GAAGGGTACCCTATGTTTGA+AGG 0.486283 5:-7103477 None:intergenic
AAAGATTGTTGCAGTGACAT+AGG 0.493042 5:-7103351 None:intergenic
AAGACCAACCCTTCAAACAT+AGG 0.497958 5:+7103468 MsaT025350.1:CDS
AAGATTGTTGCAGTGACATA+GGG 0.498647 5:-7103350 None:intergenic
ATATCATACCTCAGCAATGA+TGG 0.498759 5:-7104310 None:intergenic
TCACTGCAACAATCTTTCTC+TGG 0.504710 5:+7103357 MsaT025350.1:CDS
AAAGCAAAGAATGTAAGAAT+GGG 0.507449 5:-7103520 None:intergenic
CATTTGGATATAGATGGATA+AGG 0.510043 5:+7103903 MsaT025350.1:intron
GTTGAATCAATGTTCAACAT+TGG 0.511485 5:-7103573 None:intergenic
ACCTCATCAAATTCTGGCTA+TGG 0.514888 5:+7104075 MsaT025350.1:CDS
TTTCTTGAAGCTGTTTCACA+TGG 0.520049 5:-7103951 None:intergenic
GAAGTTCAGCCTAAGCGTGC+AGG 0.528653 5:+7104613 MsaT025350.1:CDS
AACTTTGAAACCAAAAGGCA+AGG 0.533663 5:+7103593 MsaT025350.1:CDS
CACTCTTATGTTTCTCACAA+TGG 0.534111 5:-7104194 None:intergenic
TAGCTAGCTCCTGCACGCTT+AGG 0.538929 5:-7104622 None:intergenic
GGAAATCTTTAACCTCAAAA+GGG 0.543386 5:+7103628 MsaT025350.1:CDS
AACACTATGAGCAATTCCTC+AGG 0.557225 5:+7103408 MsaT025350.1:CDS
TGACATCAAACGATGAGTCA+TGG 0.561998 5:+7103167 MsaT025350.1:CDS
AGACCAACCCTTCAAACATA+GGG 0.575956 5:+7103469 MsaT025350.1:CDS
AAGGGTACCCTATGTTTGAA+GGG 0.581486 5:-7103476 None:intergenic
ACGATGAGTCATGGACAAGT+TGG 0.581739 5:+7103176 MsaT025350.1:CDS
TAGGTCACTGCCTGAAGGTG+AGG 0.599384 5:+7104137 MsaT025350.1:CDS
CCAAGTAGGTCACTGCCTGA+AGG 0.622732 5:+7104132 MsaT025350.1:CDS
CTGCAACAATCTTTCTCTGG+TGG 0.629704 5:+7103360 MsaT025350.1:CDS
TTGAGGTTGTGTGAGAGCAA+TGG 0.632047 5:-7103386 None:intergenic
AAGGAACAACGTAGAATCTG+TGG 0.639673 5:+7104002 MsaT025350.1:CDS
TATTGGAAGAAAAGAACCAA+AGG 0.640211 5:+7103983 MsaT025350.1:CDS
GAGATGTTAACTGCTTTGAG+AGG 0.640656 5:+7103430 MsaT025350.1:CDS
ACCATAGCCAGAATTTGATG+AGG 0.651808 5:-7104076 None:intergenic
TGACATAACCATCATTGCTG+AGG 0.668356 5:+7104302 MsaT025350.1:CDS
CTCACACCTCAAAACCAAGT+AGG 0.668534 5:+7104118 MsaT025350.1:CDS
AGATTGTTGCAGTGACATAG+GGG 0.673309 5:-7103349 None:intergenic
AAAGCAGTTAACATCTCCTG+AGG 0.687587 5:-7103424 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 7103166 7104670 7103166 ID=MsaG025350
Chr5 mRNA 7103166 7104670 7103166 ID=MsaT025350.1;Parent=MsaG025350
Chr5 exon 7103166 7103210 7103166 ID=MsaT025350.1.exon1;Parent=MsaT025350.1
Chr5 CDS 7103166 7103210 7103166 ID=cds.MsaT025350.1;Parent=MsaT025350.1
Chr5 exon 7103309 7103818 7103309 ID=MsaT025350.1.exon2;Parent=MsaT025350.1
Chr5 CDS 7103309 7103818 7103309 ID=cds.MsaT025350.1;Parent=MsaT025350.1
Chr5 exon 7103916 7104323 7103916 ID=MsaT025350.1.exon3;Parent=MsaT025350.1
Chr5 CDS 7103916 7104323 7103916 ID=cds.MsaT025350.1;Parent=MsaT025350.1
Chr5 exon 7104605 7104670 7104605 ID=MsaT025350.1.exon4;Parent=MsaT025350.1
Chr5 CDS 7104605 7104670 7104605 ID=cds.MsaT025350.1;Parent=MsaT025350.1
Gene Sequence

>MsaT025350.1

ATGACATCAAACGATGAGTCATGGACAAGTTGGTTGTGTGATTTGGAACCAGAAGATTACAAAATCATCAATGACATTAACATAGCCCCTATGTCACTGCAACAATCTTTCTCTGGTGGTAGCCATTGCTCTCACACAACCTCAAACACTATGAGCAATTCCTCAGGAGATGTTAACTGCTTTGAGAGGCCTACAAAGACACTTAAGACCAACCCTTCAAACATAGGGTACCCTTCCTTACCAAAAAAAGATTCTTCCCATTCTTACATTCTTTGCTTTGACAATGAGAATCAAGAACCAAAACTAGAACCAATGTTGAACATTGATTCAACTTTGAAACCAAAAGGCAAGGTTTTTAATCATGGGAAATCTTTAACCTCAAAAGGGTCCTTAGAAAACCAAAAAAAGGGACCAAAACGCAATATTCAAGAGAGCAAGAAGACTGATTCAGCTGCCAGAAATGCTCAAGATCACATACTTGCTGAGAGAAAGAGAAGAGAAAAAATTAGTCAAAAGTTCATAGCTCTTTCAGCACTCCTTCCAGACTTGAAAAAGATGGATAAGGCTTCTGTATTAGGTGATGCTATAAACCATGTGAAACAGCTTCAAGAAAAAGTGAAGCTATTGGAAGAAAAGAACCAAAGGAACAACGTAGAATCTGTGGTATACGTTGAGAAGACAAAGTCATGTTCTTCAGATGAAGATGTTTCAGACACCTCATCAAATTCTGGCTATGGTAATTGTTGTCACACTCACACTCACACCTCAAAACCAAGTAGGTCACTGCCTGAAGGTGAGGCAAGAGTGTCAGAGAAAAACGTGCTGATTCGTGTCCATTGTGAGAAACATAAGAGTGTATTGATGAACATAATCCAAGAGATAGAGAATCTTCATCTATCAGTTACTAGTAGTTGTGCATTGCTATTTGGAACCACAAAACTTGACATAACCATCATTGCTGAGATGGATGAGAAGTTCAGCCTAAGCGTGCAGGAGCTAGCTAGAAAACTTCAGATTGTACTATTGTAA
Protein sequence

>MsaT025350.1

MTSNDESWTSWLCDLEPEDYKIINDINIAPMSLQQSFSGGSHCSHTTSNTMSNSSGDVNCFERPTKTLKTNPSNIGYPSLPKKDSSHSYILCFDNENQEPKLEPMLNIDSTLKPKGKVFNHGKSLTSKGSLENQKKGPKRNIQESKKTDSAARNAQDHILAERKRREKISQKFIALSALLPDLKKMDKASVLGDAINHVKQLQEKVKLLEEKNQRNNVESVVYVEKTKSCSSDEDVSDTSSNSGYGNCCHTHTHTSKPSRSLPEGEARVSEKNVLIRVHCEKHKSVLMNIIQEIENLHLSVTSSCALLFGTTKLDITIIAEMDEKFSLSVQELARKLQIVLL*