AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009032

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009032 MtrunA17_Chr2g0308611 95.601 341 11 2 1 339 1 339 0.0 656
MsaG009032 MtrunA17_Chr1g0175651 52.353 340 88 11 1 326 1 280 5.85e-86 261
MsaG009032 MtrunA17_Chr7g0258831 61.446 249 63 8 73 313 50 273 9.59e-83 253
MsaG009032 MtrunA17_Chr4g0055851 56.349 252 81 6 74 324 22 245 1.32e-75 234
MsaG009032 MtrunA17_Chr5g0399491 60.829 217 54 8 110 323 72 260 4.31e-70 220
MsaG009032 MtrunA17_Chr4g0054421 76.119 134 29 1 179 312 109 239 6.04e-67 211
MsaG009032 MtrunA17_Chr8g0335131 58.216 213 75 4 101 311 58 258 1.23e-62 201
MsaG009032 MtrunA17_Chr5g0400781 63.462 156 50 2 186 338 113 264 2.88e-61 197
MsaG009032 MtrunA17_Chr1g0151971 63.433 134 42 2 182 313 117 245 6.36e-53 176
MsaG009032 MtrunA17_Chr4g0044091 66.129 124 35 2 195 311 59 182 3.60e-49 163
MsaG009032 MtrunA17_Chr3g0135331 63.194 144 48 3 186 328 134 273 1.69e-44 154
MsaG009032 MtrunA17_Chr2g0299031 54.545 132 57 2 200 329 82 212 4.23e-38 135
MsaG009032 MtrunA17_Chr4g0071411 55.462 119 39 2 202 311 90 203 7.63e-34 124
MsaG009032 MtrunA17_Chr6g0453021 33.816 207 82 6 116 286 2 189 1.32e-18 84.3
MsaG009032 MtrunA17_Chr6g0450991 42.105 114 66 0 200 313 67 180 1.33e-18 84.7
MsaG009032 MtrunA17_Chr7g0217111 45.946 111 55 3 186 292 67 176 1.41e-18 84.3
MsaG009032 MtrunA17_Chr5g0416391 44.554 101 56 0 187 287 64 164 1.48e-17 81.6
MsaG009032 MtrunA17_Chr8g0362151 38.411 151 73 4 150 293 37 174 1.93e-17 81.3
MsaG009032 MtrunA17_Chr3g0119291 39.200 125 67 2 172 287 29 153 2.36e-17 80.5
MsaG009032 MtrunA17_Chr5g0415941 38.194 144 77 4 152 286 40 180 2.84e-17 81.3
MsaG009032 MtrunA17_Chr7g0265521 41.489 94 55 0 194 287 57 150 2.87e-17 79.7
MsaG009032 MtrunA17_Chr1g0179581 43.333 90 51 0 193 282 21 110 4.97e-17 75.9
MsaG009032 MtrunA17_Chr3g0123691 36.986 146 80 4 187 321 46 190 6.40e-17 80.1
MsaG009032 MtrunA17_Chr8g0381741 46.875 96 44 1 199 287 53 148 3.77e-16 78.2
MsaG009032 MtrunA17_Chr8g0362751 44.681 94 45 1 200 286 89 182 2.49e-15 75.1
MsaG009032 MtrunA17_Chr4g0060031 35.789 190 100 5 170 337 59 248 1.58e-14 73.6
MsaG009032 MtrunA17_Chr5g0403691 45.882 85 46 0 200 284 53 137 3.95e-11 62.0
MsaG009032 MtrunA17_Chr5g0403701 44.828 87 48 0 200 286 53 139 9.83e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009032 AT5G06710.1 49.401 334 133 10 1 321 1 311 1.20e-85 262
MsaG009032 AT3G60390.1 59.709 206 71 4 110 311 77 274 4.73e-68 216
MsaG009032 AT2G44910.1 55.405 222 70 3 103 315 78 279 3.06e-67 214
MsaG009032 AT4G37790.1 61.236 178 58 3 162 331 83 257 8.07e-65 206
MsaG009032 AT5G47370.1 51.481 270 96 11 71 330 17 261 1.85e-64 206
MsaG009032 AT4G16780.1 64.198 162 49 3 174 331 108 264 1.16e-60 196
MsaG009032 AT4G17460.1 51.709 234 91 7 89 318 39 254 2.70e-60 195
MsaG009032 AT2G22800.1 75.862 116 28 0 197 312 110 225 2.09e-59 192
MsaG009032 AT2G01430.1 57.042 142 59 2 186 327 125 264 2.01e-47 161
MsaG009032 AT1G70920.2 55.479 146 49 3 184 329 26 155 3.02e-41 142
MsaG009032 AT1G70920.1 55.479 146 49 3 184 329 56 185 3.77e-41 143
MsaG009032 AT5G06710.4 40.909 264 120 10 1 251 1 241 3.90e-39 140
MsaG009032 AT2G01430.2 63.636 66 24 0 186 251 125 190 6.89e-21 89.7
MsaG009032 AT5G06710.2 35.443 237 117 11 1 224 1 214 2.04e-18 83.6
MsaG009032 AT5G06710.3 35.443 237 117 11 1 224 1 214 2.04e-18 83.6
MsaG009032 AT5G03790.1 37.008 127 79 1 195 320 72 198 3.91e-18 82.8
MsaG009032 AT1G69780.1 44.554 101 56 0 187 287 72 172 2.58e-17 81.6
MsaG009032 AT1G26960.1 36.242 149 72 3 188 332 63 192 7.82e-17 79.3
MsaG009032 AT1G27045.5 51.852 81 38 1 186 265 10 90 3.75e-16 75.9
MsaG009032 AT1G27045.3 51.852 81 38 1 186 265 10 90 3.75e-16 75.9
MsaG009032 AT1G27045.2 51.852 81 38 1 186 265 2 82 4.40e-16 75.5
MsaG009032 AT1G27045.1 51.852 81 38 1 186 265 53 133 6.71e-16 76.3
MsaG009032 AT2G36610.1 40.196 102 53 1 195 288 66 167 8.47e-16 75.1
MsaG009032 AT5G15150.1 40.909 110 54 2 184 286 103 208 9.25e-16 77.4
MsaG009032 AT1G27045.4 51.852 81 38 1 186 265 53 133 1.25e-15 75.9
MsaG009032 AT2G18550.1 37.671 146 84 2 178 323 40 178 1.62e-15 75.1
MsaG009032 AT3G01220.1 42.453 106 55 2 188 289 77 180 2.10e-15 75.9
MsaG009032 AT3G01470.1 45.652 92 50 0 200 291 68 159 2.37e-15 75.5
MsaG009032 AT5G03790.2 37.190 121 68 1 195 307 72 192 3.32e-15 73.6
MsaG009032 AT5G65310.2 40.909 110 55 2 188 287 39 148 4.09e-15 75.1
MsaG009032 AT5G65310.1 40.909 110 55 2 188 287 57 166 4.38e-15 75.5
MsaG009032 AT2G22430.1 45.455 99 50 1 196 290 58 156 8.85e-15 74.3
MsaG009032 AT4G40060.1 39.669 121 67 2 174 290 35 153 2.89e-14 72.8
MsaG009032 AT4G36740.2 43.011 93 52 1 194 286 51 142 1.26e-12 66.6
MsaG009032 AT4G36740.1 43.011 93 52 1 194 286 50 141 1.28e-12 66.6
MsaG009032 AT2G46680.2 40.659 91 54 0 195 285 27 117 2.69e-12 66.6
MsaG009032 AT2G46680.1 40.659 91 54 0 195 285 27 117 2.86e-12 66.2

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTACCTTGCTCTTCTATTT+TGG 0.134685 2:+52123816 None:intergenic
AAAGCCTCTAATTGGATTAA+TGG 0.207556 2:-52125117 MsaT009032.1:CDS
GACTCTTCAAAGCCTCTAAT+TGG 0.231354 2:-52125125 MsaT009032.1:CDS
CTTTGTGTAGTACTAATAAT+TGG 0.238752 2:+52125029 None:intergenic
GGTAGGAGTTTGAGTGGTTC+AGG 0.247485 2:-52124525 MsaT009032.1:CDS
AGTTGATGCAATACAGGATT+AGG 0.292885 2:+52124930 None:intergenic
AAGAAGATGCTGCACTATTC+GGG 0.307898 2:+52124589 None:intergenic
AATTTATTATCAACCGAGTT+TGG 0.329723 2:-52124699 MsaT009032.1:CDS
GAAGCCTAAGCCAAGTTCTT+TGG 0.340212 2:+52125073 None:intergenic
AAAGAAGATGCTGCACTATT+CGG 0.346517 2:+52124588 None:intergenic
ACCGGCGACGGTGGTTGTTA+TGG 0.373808 2:-52124640 MsaT009032.1:CDS
TTCAACACCACTTTATCAAT+TGG 0.386708 2:-52125053 MsaT009032.1:CDS
GAAGAAACTTAGGCTCTCTA+AGG 0.396097 2:-52124397 MsaT009032.1:CDS
CATCAAGCTTCCAAAGAACT+TGG 0.420365 2:-52125083 MsaT009032.1:CDS
TGGAGGTTCTTCAAGGGGAT+TGG 0.425919 2:-52124679 MsaT009032.1:CDS
AGATCAAGTTGATGCAATAC+AGG 0.427277 2:+52124924 None:intergenic
CCGAGTTTGGAGGTTCTTCA+AGG 0.430226 2:-52124686 MsaT009032.1:CDS
CACATAGTTAAAGTAGTTGC+TGG 0.454337 2:+52123514 None:intergenic
AAACACTAACAGAAGAGAAT+AGG 0.466193 2:-52123603 MsaT009032.1:CDS
GCTTCCAAAGAACTTGGCTT+AGG 0.468530 2:-52125077 MsaT009032.1:CDS
AATTGGACCAATTGATAAAG+TGG 0.476543 2:+52125046 None:intergenic
ATGGAGCTAGGTTTAAGCTT+AGG 0.480018 2:-52125149 MsaT009032.1:CDS
CGTGGTTCCACCGGCGACGG+TGG 0.481596 2:-52124649 MsaT009032.1:CDS
TTCCTCAACTCTCATTCCCA+TGG 0.491801 2:-52124899 MsaT009032.1:CDS
TTTGGAACCAGACTTCTACT+TGG 0.497117 2:+52123834 None:intergenic
AATACTAGTGCCACAATCAA+TGG 0.499863 2:-52123439 MsaT009032.1:CDS
GCTGGTAATTGCATGTTGAA+TGG 0.500603 2:+52123532 None:intergenic
AGTATTAGTGACTGAGGAAG+TGG 0.500829 2:+52123456 None:intergenic
GCCCTCGCCAAGTAGAAGTC+TGG 0.501753 2:-52123841 MsaT009032.1:CDS
CGAGTTTGGAGGTTCTTCAA+GGG 0.504410 2:-52124685 MsaT009032.1:CDS
GTAACACAAGGAAGAAACTT+AGG 0.517327 2:-52124407 MsaT009032.1:CDS
AGAAGAAGAAAAGACTCAAA+GGG 0.521032 2:-52124985 MsaT009032.1:CDS
TGGAATCCTCCTTCTCAAAA+CGG 0.522286 2:-52124879 MsaT009032.1:intron
AAGAAGAAGAAAAGACTCAA+AGG 0.532446 2:-52124986 MsaT009032.1:CDS
GATAACTGTGGTGTTGGTAA+TGG 0.532740 2:-52124429 MsaT009032.1:CDS
GGATGTGAACGTGGTTCCAC+CGG 0.533881 2:-52124658 MsaT009032.1:CDS
ATGTATAGTCGAGGAGGAAG+TGG 0.535084 2:-52124549 MsaT009032.1:CDS
GTTGCAACACGTTCACAAGA+AGG 0.536936 2:+52123490 None:intergenic
CCTTGAAGAACCTCCAAACT+CGG 0.537882 2:+52124686 None:intergenic
TTATTATCAACCGAGTTTGG+AGG 0.547939 2:-52124696 MsaT009032.1:CDS
GCCATAACAACCACCGTCGC+CGG 0.549269 2:+52124639 None:intergenic
AGGAGTTTGAGTGGTTCAGG+AGG 0.550877 2:-52124522 MsaT009032.1:CDS
TTGCAACACGTTCACAAGAA+GGG 0.553307 2:+52123491 None:intergenic
AGTGGTGGTAGGAGTTTGAG+TGG 0.555829 2:-52124531 MsaT009032.1:CDS
AGAAAAGAGATCATGGAGCT+AGG 0.556425 2:-52125161 None:intergenic
CACTAACAGAAGAGAATAGG+AGG 0.565496 2:-52123600 MsaT009032.1:CDS
GAAGATGATAACTGTGGTGT+TGG 0.570473 2:-52124435 MsaT009032.1:CDS
ATGGTGAAGGGTATGATCAA+AGG 0.575898 2:-52124479 MsaT009032.1:CDS
TTTGAGAAGGAGGATTCCAT+GGG 0.580464 2:+52124883 None:intergenic
AACCAGACTTCTACTTGGCG+AGG 0.590253 2:+52123839 None:intergenic
ATAACAACCACCGTCGCCGG+TGG 0.592195 2:+52124642 None:intergenic
GAACGTGGTTCCACCGGCGA+CGG 0.601039 2:-52124652 MsaT009032.1:CDS
GAGTTTGGAGGTTCTTCAAG+GGG 0.603616 2:-52124684 MsaT009032.1:CDS
GTCGAGGAGGAAGTGGTGGT+AGG 0.604297 2:-52124542 MsaT009032.1:CDS
AGTTCTTTGGAAGCTTGATG+AGG 0.611059 2:+52125086 None:intergenic
ATTGTTATTACCATTGATTG+TGG 0.625260 2:+52123429 None:intergenic
TTCCATGGGAATGAGAGTTG+AGG 0.625263 2:+52124897 None:intergenic
ACCAGACTTCTACTTGGCGA+GGG 0.626726 2:+52123840 None:intergenic
TGTTATGGCGAACGATGAGA+TGG 0.634044 2:-52124625 MsaT009032.1:CDS
AAGGGGATTGGATGTGAACG+TGG 0.634078 2:-52124667 MsaT009032.1:CDS
GGAGTTTGAGTGGTTCAGGA+GGG 0.643496 2:-52124521 MsaT009032.1:CDS
GGTTCCAAAATAGAAGAGCA+AGG 0.645595 2:-52123820 MsaT009032.1:intron
GATCTATGCATGTATAGTCG+AGG 0.649897 2:-52124558 MsaT009032.1:CDS
AGAAGATGCTGCACTATTCG+GGG 0.651031 2:+52124590 None:intergenic
GGCACTAGTATTAGTGACTG+AGG 0.651032 2:+52123450 None:intergenic
CTATGCATGTATAGTCGAGG+AGG 0.659076 2:-52124555 MsaT009032.1:CDS
TATAGTCGAGGAGGAAGTGG+TGG 0.660573 2:-52124546 MsaT009032.1:CDS
AGAGAATAGGAGGCTACACA+AGG 0.664591 2:-52123590 MsaT009032.1:CDS
AGTGATGAAGATGATAACTG+TGG 0.745381 2:-52124441 MsaT009032.1:CDS
GTGTTGGTAATGGTAACACA+AGG 0.792389 2:-52124419 MsaT009032.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 52123411 52125171 52123411 ID=MsaG009032
Chr2 mRNA 52123411 52125171 52123411 ID=MsaT009032.1;Parent=MsaG009032
Chr2 exon 52123411 52123678 52123411 ID=MsaT009032.1.exon4;Parent=MsaT009032.1
Chr2 CDS 52123411 52123678 52123411 ID=cds.MsaT009032.1;Parent=MsaT009032.1
Chr2 exon 52123821 52123900 52123821 ID=MsaT009032.1.exon3;Parent=MsaT009032.1
Chr2 CDS 52123821 52123900 52123821 ID=cds.MsaT009032.1;Parent=MsaT009032.1
Chr2 exon 52124344 52124723 52124344 ID=MsaT009032.1.exon2;Parent=MsaT009032.1
Chr2 CDS 52124344 52124723 52124344 ID=cds.MsaT009032.1;Parent=MsaT009032.1
Chr2 exon 52124880 52125171 52124880 ID=MsaT009032.1.exon1;Parent=MsaT009032.1
Chr2 CDS 52124880 52125171 52124880 ID=cds.MsaT009032.1;Parent=MsaT009032.1
Gene Sequence

>MsaT009032.1

ATGGAGCTAGGTTTAAGCTTAGGAGACTCTTCAAAGCCTCTAATTGGATTAATGGAAAAGCATCCTCATCAAGCTTCCAAAGAACTTGGCTTAGGCTTCAACACCACTTTATCAATTGGTCCAATTATTAGTACTACACAAAGAGATCAACTTCAACAACAACAAGAAGAAGAAAAGACTCAAAGGGACATCAACAACAACAGTAATAGAACTGAAAATCCTAATCCTGTATTGCATCAACTTGATCTTCTTCCTCAACTCTCATTCCCATGGAATCCTCCTTCTCAAAACGGTAATTTATTATCAACCGAGTTTGGAGGTTCTTCAAGGGGATTGGATGTGAACGTGGTTCCACCGGCGACGGTGGTTGTTATGGCGAACGATGAGATGGCGCTTTCGTCGTCCCCGAATAGTGCAGCATCTTCTTTTCAGATGGATCTATGCATGTATAGTCGAGGAGGAAGTGGTGGTAGGAGTTTGAGTGGTTCAGGAGGGAACAAGAGAGAGTTTTCTGATGGTGAAGGGTATGATCAAAGGAATTCATCAAGAGTTAGTGATGAAGATGATAACTGTGGTGTTGGTAATGGTAACACAAGGAAGAAACTTAGGCTCTCTAAGGATCAATCTGCTTTTCTTGAAGAAAGCTTCAAAGAACATCACACTCTTAACCCTAAACAAAAACTGGCTCTTGCAAAACAACTCAATCTTCGCCCTCGCCAAGTAGAAGTCTGGTTCCAAAATAGAAGAGCAAGGACTAAGTTGAAACAAACAGAAGTAGATTGTGAATACTTAAAGAGATGCTGTGAAACACTAACAGAAGAGAATAGGAGGCTACACAAGGAACTTCAAGAATTAAGAGCTTTAAAAACTTCAAATCCATTCAACATGCAATTACCAGCAACTACTTTAACTATGTGCCCTTCTTGTGAACGTGTTGCAACAAATTCTACAGCCACTTCCTCAGTCACTAATACTAGTGCCACAATCAATGGTAATAACAATAACAAAATTAACCAGTGA
Protein sequence

>MsaT009032.1

MELGLSLGDSSKPLIGLMEKHPHQASKELGLGFNTTLSIGPIISTTQRDQLQQQQEEEKTQRDINNNSNRTENPNPVLHQLDLLPQLSFPWNPPSQNGNLLSTEFGGSSRGLDVNVVPPATVVVMANDEMALSSSPNSAASSFQMDLCMYSRGGSGGRSLSGSGGNKREFSDGEGYDQRNSSRVSDEDDNCGVGNGNTRKKLRLSKDQSAFLEESFKEHHTLNPKQKLALAKQLNLRPRQVEVWFQNRRARTKLKQTEVDCEYLKRCCETLTEENRRLHKELQELRALKTSNPFNMQLPATTLTMCPSCERVATNSTATSSVTNTSATINGNNNNKINQ*