AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008008

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008008 MtrunA17_Chr2g0298751 94.262 244 14 0 1 244 1 244 5.07e-173 476
MsaG008008 MtrunA17_Chr8g0365711 32.353 170 107 2 51 220 243 404 1.13e-23 98.6
MsaG008008 MtrunA17_Chr1g0211081 32.911 237 128 7 6 213 258 492 3.77e-22 94.7
MsaG008008 MtrunA17_Chr2g0320291 28.796 191 113 5 51 236 132 304 5.14e-19 84.3
MsaG008008 MtrunA17_Chr7g0252041 32.632 190 115 6 49 232 283 465 8.94e-18 82.0
MsaG008008 MtrunA17_Chr3g0131691 30.481 187 122 5 48 232 294 474 1.12e-17 81.6
MsaG008008 MtrunA17_Chr4g0028071 31.098 164 96 3 51 211 148 297 7.14e-17 78.6
MsaG008008 MtrunA17_Chr7g0260841 30.286 175 85 4 53 227 356 493 1.39e-14 72.8
MsaG008008 MtrunA17_Chr7g0275821 27.219 169 92 4 53 216 253 395 3.59e-14 71.2
MsaG008008 MtrunA17_Chr4g0049331 28.049 164 101 4 53 214 136 284 8.98e-14 69.3
MsaG008008 MtrunA17_Chr8g0366751 29.487 156 96 3 53 202 463 610 1.79e-13 69.3
MsaG008008 MtrunA17_Chr2g0333611 23.944 213 129 5 27 221 3 200 3.21e-13 66.6
MsaG008008 MtrunA17_Chr5g0411341 30.719 153 98 4 53 202 494 641 3.92e-13 68.6
MsaG008008 MtrunA17_Chr8g0346161 50.820 61 23 1 53 113 292 345 2.95e-12 65.9
MsaG008008 MtrunA17_Chr8g0346151 60.000 45 18 0 53 97 280 324 4.23e-12 65.1
MsaG008008 MtrunA17_Chr5g0400661 26.257 179 109 6 53 219 150 317 4.86e-12 64.7
MsaG008008 MtrunA17_Chr2g0280161 28.221 163 103 2 53 214 178 327 5.15e-12 64.7
MsaG008008 MtrunA17_Chr3g0141091 51.282 78 34 2 48 122 169 245 7.77e-12 63.9
MsaG008008 MtrunA17_Chr1g0185621 50.909 55 27 0 43 97 466 520 1.04e-11 64.3
MsaG008008 MtrunA17_Chr5g0411541 35.032 157 80 4 48 204 152 286 1.53e-11 63.2
MsaG008008 MtrunA17_Chr4g0048851 28.743 167 99 3 50 215 45 192 2.83e-11 61.2
MsaG008008 MtrunA17_Chr2g0333641 25.758 198 117 6 53 242 138 313 4.00e-11 62.0
MsaG008008 MtrunA17_Chr4g0054571 45.000 60 33 0 53 112 151 210 5.56e-11 61.6
MsaG008008 MtrunA17_Chr8g0336681 26.012 173 114 4 46 214 150 312 6.97e-11 61.2
MsaG008008 MtrunA17_Chr5g0400621 37.838 74 43 1 37 107 139 212 7.21e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008008 AT5G57150.1 63.525 244 81 6 1 241 1 239 1.56e-96 283
MsaG008008 AT4G29930.1 55.200 250 98 3 1 238 1 248 4.84e-90 266
MsaG008008 AT4G29930.6 55.417 240 87 3 1 238 1 222 8.75e-88 259
MsaG008008 AT4G29930.2 55.000 240 85 3 1 238 1 219 7.94e-87 257
MsaG008008 AT5G57150.5 65.596 218 67 6 1 215 1 213 1.63e-86 256
MsaG008008 AT5G57150.2 63.801 221 71 6 1 217 1 216 1.47e-85 254
MsaG008008 AT5G57150.3 64.384 219 69 6 1 215 1 214 1.49e-85 254
MsaG008008 AT5G57150.4 64.384 219 69 6 1 215 1 214 6.71e-84 251
MsaG008008 AT4G29930.3 54.825 228 89 3 1 216 1 226 6.79e-80 241
MsaG008008 AT4G29930.7 54.825 228 89 3 1 216 1 226 6.79e-80 241
MsaG008008 AT4G29930.5 54.587 218 76 3 1 216 1 197 1.58e-76 231
MsaG008008 AT4G29930.4 54.857 175 65 3 1 163 1 173 8.28e-55 174
MsaG008008 AT1G12860.1 33.690 187 111 6 49 232 264 440 1.12e-18 84.7
MsaG008008 AT3G26744.1 32.447 188 116 5 49 232 304 484 2.24e-18 84.0
MsaG008008 AT3G26744.4 32.447 188 116 5 49 232 304 484 2.24e-18 84.0
MsaG008008 AT3G26744.2 32.447 188 116 5 49 232 304 484 2.24e-18 84.0
MsaG008008 AT2G28160.2 31.013 158 93 4 51 205 130 274 2.10e-17 80.1
MsaG008008 AT2G28160.1 31.013 158 93 4 51 205 130 274 2.25e-17 80.1
MsaG008008 AT2G16910.1 31.183 186 113 5 51 225 313 494 3.51e-17 80.9
MsaG008008 AT3G26744.6 34.568 162 95 5 49 206 304 458 1.81e-16 78.6
MsaG008008 AT1G01260.1 29.518 166 82 3 53 218 434 564 5.61e-16 77.4
MsaG008008 AT1G01260.2 29.518 166 82 3 53 218 434 564 5.61e-16 77.4
MsaG008008 AT1G01260.3 29.518 166 82 3 53 218 434 564 5.61e-16 77.4
MsaG008008 AT2G46510.1 61.818 55 21 0 53 107 396 450 2.87e-15 75.1
MsaG008008 AT1G12860.2 34.783 161 92 6 49 206 264 414 3.46e-15 74.7
MsaG008008 AT5G46760.1 29.032 186 115 7 53 233 416 589 3.56e-15 74.7
MsaG008008 AT4G17880.1 30.625 160 78 4 53 202 417 553 3.04e-14 72.0
MsaG008008 AT4G16430.1 46.053 76 40 1 53 127 321 396 3.77e-14 71.6
MsaG008008 AT1G32640.1 31.333 150 91 4 53 202 453 590 6.39e-14 71.2
MsaG008008 AT4G37850.2 29.444 180 107 6 53 228 153 316 1.45e-13 69.3
MsaG008008 AT4G37850.1 29.444 180 107 6 53 228 153 316 1.45e-13 69.3
MsaG008008 AT1G63650.3 29.213 178 116 4 41 212 397 570 5.18e-13 68.6
MsaG008008 AT1G63650.1 29.213 178 116 4 41 212 397 570 5.18e-13 68.6
MsaG008008 AT1G63650.2 29.213 178 116 4 41 212 397 570 5.18e-13 68.6
MsaG008008 AT5G46830.1 27.473 182 111 3 53 228 344 510 4.23e-12 65.9
MsaG008008 AT4G21330.1 30.357 168 107 4 51 218 31 188 5.26e-12 63.5
MsaG008008 AT1G10610.1 27.513 189 120 4 51 232 263 441 1.25e-11 64.3
MsaG008008 AT1G10610.2 27.513 189 120 4 51 232 233 411 1.62e-11 63.9
MsaG008008 AT1G10610.3 26.064 188 124 3 51 232 166 344 1.66e-11 63.5
MsaG008008 AT2G22770.1 23.834 193 117 3 33 209 113 291 5.29e-11 62.0
MsaG008008 AT4G00870.1 43.333 60 34 0 53 112 250 309 8.89e-11 61.6

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTGATCAAAATCATAATT+TGG 0.197391 2:+26446436 None:intergenic
CTGATCTGTTCTCTTCTTCT+TGG 0.200519 2:+26446393 None:intergenic
GGATAAAGCTTCAATTATTA+AGG 0.255192 2:-26446554 MsaT008008.1:CDS
TAATTTGGATTAATATTATT+AGG 0.270353 2:+26446451 None:intergenic
ACCTATCAAGCTCTTGGGTT+TGG 0.289916 2:+26474566 None:intergenic
GTGATGAGTACAAGCTTTAC+TGG 0.315934 2:-26474606 MsaT008008.1:CDS
CCTGATGATGCTGCACCATC+TGG 0.327488 2:+26447457 None:intergenic
GAGATAATGGAACTTGAATC+TGG 0.329852 2:-26446478 MsaT008008.1:CDS
TGTTTACCTTGCTAATGTTT+GGG 0.357210 2:+26447353 None:intergenic
GATTATTCAAGCTGAGATAA+TGG 0.358095 2:-26446491 MsaT008008.1:CDS
TCCCTTCATTAGATGCTCAT+AGG 0.368457 2:+26438651 None:intergenic
TTTACCTCAAGGACTTCAAT+TGG 0.374167 2:+26446340 None:intergenic
ATGTTTACCTTGCTAATGTT+TGG 0.403010 2:+26447352 None:intergenic
TAGATGCTCATAGGGCTTAG+AGG 0.411365 2:+26438660 None:intergenic
TTGTGGTTGCAGCTGGGGAT+TGG 0.412240 2:-26447515 MsaT008008.1:intron
ACATTGTCTCTGAGAGGAAT+AGG 0.413409 2:-26447420 MsaT008008.1:CDS
TTGCAGCTGGGGATTGGATG+AGG 0.423798 2:-26447509 MsaT008008.1:intron
TCCAAACCCAAGAGCTTGAT+AGG 0.430262 2:-26474567 MsaT008008.1:intron
CCCTTCATTAGATGCTCATA+GGG 0.440042 2:+26438652 None:intergenic
TATCAAGCTCTTGGGTTTGG+AGG 0.453409 2:+26474569 None:intergenic
CCAGATGGTGCAGCATCATC+AGG 0.460325 2:-26447457 MsaT008008.1:CDS
TGAGCTTGACATGTAACAAA+AGG 0.468788 2:-26444725 MsaT008008.1:CDS
CTGATGATGCTGCACCATCT+GGG 0.496200 2:+26447458 None:intergenic
GCAGCTTAGGGTTACATACA+TGG 0.504078 2:-26444766 MsaT008008.1:intron
AAGAGCTTCCTGTGTTGCTA+AGG 0.527358 2:-26446417 MsaT008008.1:CDS
TTGGGTTTGGAGGAACATGT+TGG 0.533281 2:+26474579 None:intergenic
GAGCTTGACATGTAACAAAA+GGG 0.547151 2:-26444724 MsaT008008.1:CDS
CTTTCCAATTGAAGTCCTTG+AGG 0.548914 2:-26446344 MsaT008008.1:intron
TGATGATGCTGCACCATCTG+GGG 0.561453 2:+26447459 None:intergenic
TTCTTGGACCTTAGCAACAC+AGG 0.566724 2:+26446409 None:intergenic
AGGGTCATTAAGAGCTGCAA+TGG 0.567337 2:+26438680 None:intergenic
CTCATCACCAATGTTCTCCA+TGG 0.572679 2:+26474621 None:intergenic
AGATGCTCATAGGGCTTAGA+GGG 0.580755 2:+26438661 None:intergenic
TGATGAGTACAAGCTTTACT+GGG 0.584970 2:-26474605 MsaT008008.1:CDS
TTTGAAGACAGTCTTCATTG+AGG 0.586246 2:-26444613 MsaT008008.1:intron
TTAACAACCATGGAGAACAT+TGG 0.592898 2:-26474628 None:intergenic
AGATAATGGAACTTGAATCT+GGG 0.607917 2:-26446477 MsaT008008.1:CDS
TAACAAAAGGGCAGACACAA+TGG 0.621554 2:-26444712 MsaT008008.1:CDS
ACTCTTTGCACTTAGAGCAG+TGG 0.626022 2:-26447377 MsaT008008.1:CDS
TATGATTCAAGCTCCCCAGA+TGG 0.634637 2:-26447472 MsaT008008.1:CDS
CAGCTTAGGGTTACATACAT+GGG 0.636587 2:-26444765 MsaT008008.1:CDS
TTGTCTCTGAGAGGAATAGG+AGG 0.637270 2:-26447417 MsaT008008.1:CDS
CTAAGAACATTGTCTCTGAG+AGG 0.651380 2:-26447426 MsaT008008.1:CDS
AGTGGTCCCAAACATTAGCA+AGG 0.661525 2:-26447359 MsaT008008.1:intron
ATACATGGGAGAGAATACAA+TGG 0.777577 2:-26444751 MsaT008008.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 26438659 26474641 26438659 ID=MsaG008008
Chr2 mRNA 26438659 26474641 26438659 ID=MsaT008008.1;Parent=MsaG008008
Chr2 exon 26438659 26438748 26438659 ID=MsaT008008.1.exon5;Parent=MsaT008008.1
Chr2 CDS 26438659 26438748 26438659 ID=cds.MsaT008008.1;Parent=MsaT008008.1
Chr2 exon 26444614 26444784 26444614 ID=MsaT008008.1.exon4;Parent=MsaT008008.1
Chr2 CDS 26444614 26444784 26444614 ID=cds.MsaT008008.1;Parent=MsaT008008.1
Chr2 exon 26446345 26446578 26446345 ID=MsaT008008.1.exon3;Parent=MsaT008008.1
Chr2 CDS 26446345 26446578 26446345 ID=cds.MsaT008008.1;Parent=MsaT008008.1
Chr2 exon 26447360 26447525 26447360 ID=MsaT008008.1.exon2;Parent=MsaT008008.1
Chr2 CDS 26447360 26447525 26447360 ID=cds.MsaT008008.1;Parent=MsaT008008.1
Chr2 exon 26474568 26474641 26474568 ID=MsaT008008.1.exon1;Parent=MsaT008008.1
Chr2 CDS 26474568 26474641 26474568 ID=cds.MsaT008008.1;Parent=MsaT008008.1
Gene Sequence

>MsaT008008.1

ATGGAGAACATTGGTGATGAGTACAAGCTTTACTGGGAGACCAACATGTTCCTCCAAACCCAAGAGCTTGATAGCTGGGGATTGGATGAGGCTTTTTCAGGGTATTATGATTCAAGCTCCCCAGATGGTGCAGCATCATCAGGAGTTTCATCTAAGAACATTGTCTCTGAGAGGAATAGGAGGAAGAAGCTTAATGAAAGACTCTTTGCACTTAGAGCAGTGGTCCCAAACATTAGCAAGATGGATAAAGCTTCAATTATTAAGGATGCTATTGAGTACATAAAGCACTTGCATGAACAAGAGAAGATTATTCAAGCTGAGATAATGGAACTTGAATCTGGGATGCCTAATAATATTAATCCAAATTATGATTTTGATCAAGAGCTTCCTGTGTTGCTAAGGTCCAAGAAGAAGAGAACAGATCAGTTATATGATTCTGTCACTTCAAGAAACTTTCCAATTGAAGTCCTTGAGCTTAGGGTTACATACATGGGAGAGAATACAATGGTAGTGAGCTTGACATGTAACAAAAGGGCAGACACAATGGTGAAATTGTGTGAAGTTTTCGAATCTTTGAAGCTTAAAATTATTACTGCCAACATCACCTCTTTTTCAGGCAGGCTTTTGAAGACAGTCTTCATTGAGGCAAATGAGGAAGATAGAGATCTATTGCAAATGAAGATTCAAACAGCCATTGCAGCTCTTAATGACCCTCTAAGCCCTATGAGCATCTAA
Protein sequence

>MsaT008008.1

MENIGDEYKLYWETNMFLQTQELDSWGLDEAFSGYYDSSSPDGAASSGVSSKNIVSERNRRKKLNERLFALRAVVPNISKMDKASIIKDAIEYIKHLHEQEKIIQAEIMELESGMPNNINPNYDFDQELPVLLRSKKKRTDQLYDSVTSRNFPIEVLELRVTYMGENTMVVSLTCNKRADTMVKLCEVFESLKLKIITANITSFSGRLLKTVFIEANEEDRDLLQMKIQTAIAALNDPLSPMSI*