AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001413


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001413 MtrunA17_Chr1g0162971 79.012 162 32 1 1 162 65 224 9.04e-91 273
MsaG001413 MtrunA17_Chr1g0162971 83.333 120 20 0 105 224 326 445 7.17e-45 155
MsaG001413 MtrunA17_Chr1g0163001 95.082 122 6 0 1 122 67 188 2.48e-85 262
MsaG001413 MtrunA17_Chr1g0199101 92.623 122 9 0 1 122 71 192 1.30e-84 261
MsaG001413 MtrunA17_Chr1g0210821 91.803 122 10 0 1 122 68 189 5.58e-84 260
MsaG001413 MtrunA17_Chr7g0263941 84.426 122 19 0 1 122 58 179 9.75e-79 241
MsaG001413 MtrunA17_Chr8g0342421 84.426 122 19 0 1 122 86 207 7.60e-78 243
MsaG001413 MtrunA17_Chr2g0330171 83.607 122 20 0 1 122 70 191 8.06e-78 241
MsaG001413 MtrunA17_Chr4g0040571 69.375 160 42 2 1 160 63 215 5.79e-77 240
MsaG001413 MtrunA17_Chr1g0181381 72.549 153 36 3 1 152 62 209 6.73e-77 239
MsaG001413 MtrunA17_Chr8g0373541 81.967 122 22 0 1 122 57 178 1.06e-76 239
MsaG001413 MtrunA17_Chr1g0185121 66.258 163 52 2 1 162 64 224 1.13e-75 235
MsaG001413 MtrunA17_Chr7g0268961 80.328 122 24 0 1 122 46 167 2.07e-75 235
MsaG001413 MtrunA17_Chr2g0324991 83.193 119 20 0 1 119 16 134 3.61e-75 224
MsaG001413 MtrunA17_Chr1g0151351 81.301 123 22 1 1 122 65 187 7.75e-75 233
MsaG001413 MtrunA17_Chr4g0029521 82.114 123 21 1 1 122 62 184 1.07e-74 234
MsaG001413 MtrunA17_Chr1g0191991 79.508 122 25 0 1 122 87 208 3.21e-74 233
MsaG001413 MtrunA17_Chr2g0326381 57.895 190 70 4 1 189 56 236 1.07e-73 229
MsaG001413 MtrunA17_Chr3g0141431 73.950 119 30 1 1 118 46 164 6.84e-67 211
MsaG001413 MtrunA17_Chr6g0479921 60.504 119 46 1 1 118 53 171 5.76e-53 177
MsaG001413 MtrunA17_Chr8g0375521 60.000 120 46 2 1 118 51 170 9.86e-52 172
MsaG001413 MtrunA17_Chr8g0352011 37.692 130 72 4 1 122 174 302 9.57e-19 83.2
MsaG001413 MtrunA17_Chr1g0200421 36.154 130 71 4 1 118 246 375 1.13e-18 84.0
MsaG001413 MtrunA17_Chr7g0258011 36.154 130 74 4 1 122 184 312 4.70e-18 81.3
MsaG001413 MtrunA17_Chr5g0422571 35.115 131 75 3 1 122 109 238 7.52e-18 80.1
MsaG001413 MtrunA17_Chr1g0198651 35.821 134 72 4 1 122 110 241 1.82e-17 79.3
MsaG001413 MtrunA17_Chr1g0173841 35.385 130 75 4 1 122 223 351 3.17e-17 79.3
MsaG001413 MtrunA17_Chr4g0053341 35.385 130 75 3 1 122 82 210 4.05e-17 77.4
MsaG001413 MtrunA17_Chr2g0321291 37.008 127 69 4 5 122 145 269 4.31e-17 78.2
MsaG001413 MtrunA17_Chr2g0328921 34.615 130 76 4 1 122 146 274 9.08e-17 77.4
MsaG001413 MtrunA17_Chr2g0320341 36.800 125 65 4 8 118 246 370 9.32e-17 78.2
MsaG001413 MtrunA17_Chr4g0026521 35.433 127 71 4 5 122 130 254 2.47e-16 76.3
MsaG001413 MtrunA17_Chr3g0123941 34.127 126 75 3 1 118 132 257 5.45e-15 72.8
MsaG001413 MtrunA17_Chr8g0382121 33.333 129 75 5 1 118 120 248 4.38e-14 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001413 AT2G02080.6 78.146 151 31 1 1 151 1 149 3.58e-85 259
MsaG001413 AT2G02080.2 78.146 151 31 1 1 151 1 149 3.58e-85 259
MsaG001413 AT2G02080.1 78.146 151 31 1 1 151 78 226 1.51e-84 260
MsaG001413 AT2G02080.4 78.146 151 31 1 1 151 78 226 1.51e-84 260
MsaG001413 AT2G02080.5 78.146 151 31 1 1 151 78 226 1.51e-84 260
MsaG001413 AT2G02080.3 78.146 151 31 1 1 151 78 226 1.51e-84 260
MsaG001413 AT1G14580.1 77.703 148 31 1 1 148 77 222 7.47e-83 254
MsaG001413 AT1G14580.2 77.703 148 31 1 1 148 77 222 7.47e-83 254
MsaG001413 AT1G14580.3 77.703 148 31 1 1 148 91 236 1.14e-82 254
MsaG001413 AT2G02070.2 90.984 122 11 0 1 122 76 197 8.04e-82 255
MsaG001413 AT2G02070.1 90.984 122 11 0 1 122 76 197 8.04e-82 255
MsaG001413 AT3G50700.1 85.246 122 18 0 1 122 58 179 2.93e-78 242
MsaG001413 AT1G55110.3 84.553 123 18 1 1 122 87 209 3.23e-76 237
MsaG001413 AT1G55110.1 84.553 123 18 1 1 122 87 209 3.23e-76 237
MsaG001413 AT1G55110.2 84.553 123 18 1 1 122 87 209 3.23e-76 237
MsaG001413 AT5G66730.1 83.607 122 20 0 1 122 56 177 9.06e-76 237
MsaG001413 AT3G13810.6 85.366 123 17 1 1 122 75 197 2.85e-74 233
MsaG001413 AT5G03150.1 68.263 167 47 3 1 166 77 238 3.44e-74 233
MsaG001413 AT3G13810.4 85.366 123 17 1 1 122 94 216 3.52e-74 233
MsaG001413 AT3G13810.1 85.366 123 17 1 1 122 94 216 3.52e-74 233
MsaG001413 AT3G45260.2 82.927 123 20 1 1 122 63 185 3.80e-74 231
MsaG001413 AT3G45260.1 82.927 123 20 1 1 122 63 185 3.80e-74 231
MsaG001413 AT3G13810.5 85.366 123 17 1 1 122 89 211 3.88e-74 233
MsaG001413 AT3G13810.3 85.366 123 17 1 1 122 81 203 4.09e-74 233
MsaG001413 AT3G13810.2 85.366 123 17 1 1 122 95 217 4.82e-74 233
MsaG001413 AT1G03840.2 66.038 159 52 1 1 159 63 219 4.96e-74 233
MsaG001413 AT1G03840.1 66.038 159 52 1 1 159 65 221 5.26e-74 233
MsaG001413 AT4G02670.1 69.281 153 44 2 1 152 77 227 1.45e-73 228
MsaG001413 AT4G02670.2 69.281 153 44 2 1 152 79 229 1.50e-73 229
MsaG001413 AT5G60470.1 66.038 159 51 2 1 158 59 215 1.57e-73 230
MsaG001413 AT5G60470.2 66.038 159 51 2 1 158 68 224 2.42e-73 229
MsaG001413 AT5G60470.3 66.038 159 51 2 1 158 64 220 2.99e-73 229
MsaG001413 AT5G44160.2 70.548 146 41 1 1 146 22 165 8.55e-73 227
MsaG001413 AT5G44160.1 70.548 146 41 1 1 146 61 204 1.53e-72 228
MsaG001413 AT1G68130.1 62.500 120 43 2 1 118 65 184 5.24e-54 179
MsaG001413 AT1G25250.3 61.157 121 44 2 1 118 57 177 1.07e-53 177
MsaG001413 AT2G01940.1 62.500 120 43 2 1 118 68 187 1.09e-53 178
MsaG001413 AT1G25250.1 61.157 121 44 2 1 118 34 154 1.14e-53 176
MsaG001413 AT2G01940.3 62.810 121 42 3 1 119 68 187 1.62e-52 175
MsaG001413 AT1G68130.2 63.265 98 34 2 23 118 1 98 2.24e-41 144
MsaG001413 AT2G01940.2 64.286 98 33 2 23 118 1 98 5.27e-41 143
MsaG001413 AT1G25250.2 61.616 99 35 2 23 118 1 99 7.80e-41 141
MsaG001413 AT1G34370.3 34.848 132 72 3 1 118 29 160 1.39e-17 79.7
MsaG001413 AT1G34370.2 34.848 132 72 3 1 118 239 370 2.19e-17 80.9
MsaG001413 AT1G34370.1 34.848 132 72 3 1 118 239 370 2.19e-17 80.9
MsaG001413 AT3G20880.1 34.615 130 76 4 1 122 251 379 3.35e-17 79.7
MsaG001413 AT3G57670.1 35.385 130 75 4 1 122 212 340 3.74e-17 79.7
MsaG001413 AT1G51220.1 33.846 130 77 4 1 122 173 301 4.30e-17 79.0
MsaG001413 AT1G08290.1 36.220 127 71 4 5 122 179 304 1.91e-16 77.4
MsaG001413 AT5G22890.1 33.333 132 74 3 1 118 212 343 2.42e-16 77.4
MsaG001413 AT1G34790.1 36.641 131 72 5 1 122 140 268 3.34e-16 76.3
MsaG001413 AT1G13290.1 34.848 132 75 4 1 122 96 226 4.55e-16 75.9

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAAATAAACCTTTCTCTT+TGG 0.255380 1:-19759431 None:intergenic
GTATGTGAAGTGTGCCAAAA+AGG 0.353724 1:+19759326 MsaT001413.1:CDS
TCTGCAGCAACAAAGGTTAA+TGG 0.357357 1:+19762318 MsaT001413.1:CDS
GCAGAGAATAATGGAAATAT+TGG 0.362372 1:+19762447 MsaT001413.1:CDS
AGATAGGGCTTGCGCTTGTT+TGG 0.373788 1:-19762173 None:intergenic
TGGTGAACACATGTTGGTTC+TGG 0.406411 1:-19759455 None:intergenic
AACTTGGAAGCAGAGAATAA+TGG 0.409292 1:+19762438 MsaT001413.1:CDS
TCTTCAATACTAAGAAGCTT+TGG 0.417560 1:+19762282 MsaT001413.1:CDS
TATTGAAGAAGAAGTATTGT+TGG 0.444187 1:-19762268 None:intergenic
AGTATGCTGTTCAATCTGAT+TGG 0.446846 1:+19759576 MsaT001413.1:CDS
TTCTAAGACTTGTGGTACTA+AGG 0.456129 1:+19759607 MsaT001413.1:CDS
GCTGACATGTGAGGAGAGAT+AGG 0.463590 1:-19762189 None:intergenic
GTGTTCACCATGACCCTTCA+AGG 0.470912 1:+19759468 MsaT001413.1:CDS
AGAAGTATTGTTGGTGGTGG+TGG 0.473552 1:-19762259 None:intergenic
AATGGAAATATTGGTGGTGG+AGG 0.493890 1:+19762456 MsaT001413.1:CDS
GAAGAGGACACAATTTGCCT+TGG 0.500777 1:+19759381 MsaT001413.1:CDS
AATAATGGAAATATTGGTGG+TGG 0.516109 1:+19762453 MsaT001413.1:CDS
TAACAAAGAGCCAAAGAGAA+AGG 0.517289 1:+19759421 MsaT001413.1:CDS
AGGGCACTTGGTGATCTCAC+TGG 0.527339 1:+19759488 MsaT001413.1:CDS
CATGACCCTTCAAGGGCACT+TGG 0.527782 1:+19759476 MsaT001413.1:CDS
AGAAACATGAATGGAGGAGT+TGG 0.532530 1:+19762393 MsaT001413.1:CDS
GAGAATAATGGAAATATTGG+TGG 0.544890 1:+19762450 MsaT001413.1:CDS
AAGGTTAATGGTGGTGGTGA+TGG 0.546808 1:+19762330 MsaT001413.1:CDS
ATTAACCTTTGTTGCTGCAG+AGG 0.549390 1:-19762316 None:intergenic
TTCTTCCTCTGCAGCAACAA+AGG 0.557640 1:+19762311 MsaT001413.1:CDS
AGATCACCAAGTGCCCTTGA+AGG 0.560455 1:-19759482 None:intergenic
ACTGTGGTACTCTCTTCTCC+AGG 0.561759 1:+19759642 MsaT001413.1:CDS
ATAGTTATGAGAAACATGAA+TGG 0.565754 1:+19762384 MsaT001413.1:CDS
ATGGAAATATTGGTGGTGGA+GGG 0.575851 1:+19762457 MsaT001413.1:CDS
CAAGTGCCCTTGAAGGGTCA+TGG 0.580343 1:-19759475 None:intergenic
TGAAGAAGAAGTATTGTTGG+TGG 0.581655 1:-19762265 None:intergenic
GTTATGAGAAACATGAATGG+AGG 0.584520 1:+19762387 MsaT001413.1:CDS
GATCACCAAGTGCCCTTGAA+GGG 0.585984 1:-19759481 None:intergenic
AAGTCAACGTAATTTCAACT+TGG 0.588729 1:+19762422 MsaT001413.1:CDS
GCAACAAAGGTTAATGGTGG+TGG 0.590964 1:+19762324 MsaT001413.1:CDS
AGAAGAAGTATTGTTGGTGG+TGG 0.609899 1:-19762262 None:intergenic
CTGACATGTGAGGAGAGATA+GGG 0.611438 1:-19762188 None:intergenic
AAAGCTCATTCTAAGACTTG+TGG 0.613886 1:+19759599 MsaT001413.1:CDS
TGTTCACCATGACCCTTCAA+GGG 0.614167 1:+19759469 MsaT001413.1:CDS
AATTTACAACTACATAGAAG+AGG 0.622328 1:+19759365 MsaT001413.1:CDS
GCAGCAACAAAGGTTAATGG+TGG 0.676561 1:+19762321 MsaT001413.1:CDS
GGGTCATGGTGAACACATGT+TGG 0.698022 1:-19759461 None:intergenic
AAAGCTGTTGCTGACATGTG+AGG 0.698667 1:-19762198 None:intergenic
AAGGAGTATAGATGTGACTG+TGG 0.709247 1:+19759626 MsaT001413.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 19759308 19762491 19759308 ID=MsaG001413
Chr1 mRNA 19759308 19762491 19759308 ID=MsaT001413.1;Parent=MsaG001413
Chr1 exon 19759308 19759663 19759308 ID=MsaT001413.1.exon1;Parent=MsaT001413.1
Chr1 CDS 19759308 19759663 19759308 ID=cds.MsaT001413.1;Parent=MsaT001413.1
Chr1 exon 19762173 19762491 19762173 ID=MsaT001413.1.exon2;Parent=MsaT001413.1
Chr1 CDS 19762173 19762491 19762173 ID=cds.MsaT001413.1;Parent=MsaT001413.1
Gene Sequence

>MsaT001413.1

ATGGCAACAAACAGATTTGTATGTGAAGTGTGCCAAAAAGGGTTCCAAAGGGAGCAAAATTTACAACTACATAGAAGAGGACACAATTTGCCTTGGAAGCTAAAGCAAAAGAGTAACAAAGAGCCAAAGAGAAAGGTTTATTTGTGTCCAGAACCAACATGTGTTCACCATGACCCTTCAAGGGCACTTGGTGATCTCACTGGAATTAAGAAACACTATTTTAGAAAGCATGGTGAGAAAAAATGGAAGTGTGAAAAGTGTTCTAAGAAGTATGCTGTTCAATCTGATTGGAAAGCTCATTCTAAGACTTGTGGTACTAAGGAGTATAGATGTGACTGTGGTACTCTCTTCTCCAGCCAAACAAGCGCAAGCCCTATCTCTCCTCACATGTCAGCAACAGCTTTGCTTCAAAAAGCTTCTCAAATGGGTGCAACTTCAAGCACCACCACCACCAACAATACTTCTTCTTCAATACTAAGAAGCTTTGGTCATGTTTCTTCCTCTGCAGCAACAAAGGTTAATGGTGGTGGTGATGGACTCACTAGAGATTTTCTTGGAGTTGGTCAAATAGTTATGAGAAACATGAATGGAGGAGTTGGTCAAAGAAGTCAACGTAATTTCAACTTGGAAGCAGAGAATAATGGAAATATTGGTGGTGGAGGGAACTTTGAGTGA

Protein sequence

>MsaT001413.1

MATNRFVCEVCQKGFQREQNLQLHRRGHNLPWKLKQKSNKEPKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYFRKHGEKKWKCEKCSKKYAVQSDWKAHSKTCGTKEYRCDCGTLFSSQTSASPISPHMSATALLQKASQMGATSSTTTTNNTSSSILRSFGHVSSSAATKVNGGGDGLTRDFLGVGQIVMRNMNGGVGQRSQRNFNLEAENNGNIGGGGNFE*