AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039248

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039248 MtrunA17_Chr7g0256211 90.824 425 7 3 1 401 1 417 0.0 775
MsaG039248 MtrunA17_Chr8g0353501 64.516 434 116 10 1 400 1 430 1.56e-176 500
MsaG039248 MtrunA17_Chr5g0422771 48.058 412 164 9 32 400 24 428 3.69e-116 346
MsaG039248 MtrunA17_Chr1g0210151 59.091 308 106 6 109 400 1 304 6.51e-114 336
MsaG039248 MtrunA17_Chr1g0174701 60.294 272 92 6 140 400 204 470 2.74e-105 320
MsaG039248 MtrunA17_Chr7g0258321 59.259 270 97 5 140 400 162 427 3.10e-105 318
MsaG039248 MtrunA17_Chr2g0321431 60.317 252 90 2 149 400 192 433 1.58e-100 307
MsaG039248 MtrunA17_Chr3g0124601 56.439 264 102 3 142 400 70 325 1.41e-92 283
MsaG039248 MtrunA17_Chr4g0026401 51.020 294 119 5 115 400 149 425 1.44e-87 274
MsaG039248 MtrunA17_Chr3g0115371 44.586 314 144 5 104 400 13 313 4.64e-77 243
MsaG039248 MtrunA17_Chr8g0382861 44.224 303 154 5 104 400 27 320 4.61e-74 235
MsaG039248 MtrunA17_Chr5g0424861 49.412 255 117 4 151 400 67 314 3.05e-73 233
MsaG039248 MtrunA17_Chr3g0093451 59.669 181 56 4 134 303 35 209 1.32e-70 221
MsaG039248 MtrunA17_Chr5g0424851 41.758 182 99 2 219 400 228 402 2.30e-43 156
MsaG039248 MtrunA17_Chr5g0424851 43.085 188 99 3 214 400 9 189 2.75e-42 154
MsaG039248 MtrunA17_Chr1g0196951 33.146 178 89 5 228 400 59 211 4.03e-17 80.1
MsaG039248 MtrunA17_Chr8g0384821 27.149 221 121 5 212 398 8 222 3.34e-12 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039248 AT3G12250.6 69.932 296 85 3 109 401 1 295 2.54e-141 406
MsaG039248 AT3G12250.2 69.932 296 85 3 109 401 1 295 2.54e-141 406
MsaG039248 AT3G12250.7 69.932 296 85 3 109 401 1 295 2.54e-141 406
MsaG039248 AT3G12250.1 69.932 296 85 3 109 401 1 295 2.54e-141 406
MsaG039248 AT3G12250.5 75.285 263 64 1 139 401 7 268 2.81e-140 402
MsaG039248 AT3G12250.3 75.285 263 64 1 139 401 28 289 8.99e-140 402
MsaG039248 AT3G12250.4 75.285 263 64 1 139 401 59 320 4.60e-139 401
MsaG039248 AT5G06950.2 75.665 263 63 1 139 401 34 295 8.07e-139 399
MsaG039248 AT5G06950.4 75.665 263 63 1 139 401 34 295 8.07e-139 399
MsaG039248 AT5G06950.1 75.665 263 63 1 139 401 34 295 8.07e-139 399
MsaG039248 AT5G06950.5 75.665 263 63 1 139 401 34 295 8.07e-139 399
MsaG039248 AT5G06950.3 75.665 263 63 1 139 401 34 295 8.07e-139 399
MsaG039248 AT5G06960.3 75.099 253 62 1 149 401 24 275 2.16e-130 377
MsaG039248 AT5G06960.2 75.099 253 62 1 149 401 44 295 2.63e-130 378
MsaG039248 AT5G06960.1 75.099 253 62 1 149 401 44 295 2.63e-130 378
MsaG039248 AT1G68640.1 65.504 258 85 3 136 390 150 406 8.50e-115 343
MsaG039248 AT1G08320.2 61.111 252 88 3 149 400 52 293 1.09e-103 311
MsaG039248 AT1G08320.5 61.111 252 88 3 149 400 52 293 1.09e-103 311
MsaG039248 AT1G08320.1 61.111 252 88 3 149 400 176 417 1.91e-102 312
MsaG039248 AT1G08320.4 61.111 252 88 3 149 400 176 417 1.91e-102 312
MsaG039248 AT1G08320.3 61.111 252 88 3 149 400 176 417 1.91e-102 312
MsaG039248 AT5G06839.2 54.135 266 109 3 148 400 115 380 1.46e-94 290
MsaG039248 AT5G06839.1 54.340 265 109 3 148 400 115 379 1.13e-93 288
MsaG039248 AT5G06839.3 54.340 265 109 3 148 400 158 422 1.72e-93 288
MsaG039248 AT5G10030.5 54.545 264 107 4 142 400 71 326 8.37e-92 281
MsaG039248 AT5G10030.3 54.545 264 107 4 142 400 71 326 8.37e-92 281
MsaG039248 AT5G10030.1 54.545 264 107 4 142 400 71 326 8.37e-92 281
MsaG039248 AT5G10030.4 54.545 264 107 4 142 400 71 326 8.37e-92 281
MsaG039248 AT5G10030.2 54.545 264 107 4 142 400 71 326 8.37e-92 281
MsaG039248 AT1G22070.1 51.211 289 128 5 120 400 63 346 1.18e-89 276
MsaG039248 AT5G65210.6 53.030 264 111 3 142 400 5 260 1.25e-88 270
MsaG039248 AT5G65210.5 53.030 264 111 3 142 400 75 330 3.90e-88 271
MsaG039248 AT5G65210.7 53.030 264 111 3 142 400 75 330 3.90e-88 271
MsaG039248 AT5G65210.3 53.030 264 111 3 142 400 75 330 3.90e-88 271
MsaG039248 AT5G65210.1 53.030 264 111 3 142 400 75 330 3.90e-88 271
MsaG039248 AT5G65210.2 53.030 264 111 3 142 400 75 330 3.90e-88 271
MsaG039248 AT5G65210.4 53.030 264 111 3 142 400 75 330 3.90e-88 271
MsaG039248 AT1G77920.1 54.400 250 102 2 151 400 93 330 4.56e-86 266
MsaG039248 AT3G14880.2 27.011 174 101 4 211 358 1 174 8.09e-12 65.1
MsaG039248 AT3G14880.1 33.051 118 73 3 211 322 1 118 3.30e-11 63.5

Find 103 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTCTCGAATTTCTGATTT+TGG 0.114816 7:-86507406 MsaT039248.1:CDS
TTTCACTGGATTCCCCTTTC+AGG 0.167036 7:+86506350 None:intergenic
CCAGATGTTGAAGCCAAATT+TGG 0.211263 7:+86506582 None:intergenic
AGCCATTTGTCCCATGTAAT+TGG 0.245079 7:+86504681 None:intergenic
CCAAATTTGGCTTCAACATC+TGG 0.245789 7:-86506582 MsaT039248.1:CDS
ATCAACTGTAGTTCAGTTAA+AGG 0.246745 7:+86504841 None:intergenic
CCCAACCCATCAGGTGCTTC+TGG 0.270597 7:-86504712 MsaT039248.1:CDS
TTAGGTGCTGATATTCAATT+TGG 0.276431 7:-86506787 MsaT039248.1:CDS
GCTGTAGCTCTTGCTCTAGT+TGG 0.316242 7:+86506027 None:intergenic
GCAGCTTCTTGTAAGTCATT+TGG 0.321728 7:-86504866 MsaT039248.1:intron
GATGGTTAGAAGAGCATAAT+AGG 0.327313 7:-86505248 MsaT039248.1:CDS
CTGGCGGCCATCGTGAGAAT+TGG 0.336333 7:-86506563 MsaT039248.1:CDS
TATTGCAGCCCTTAGTTCAT+TGG 0.346864 7:+86505221 None:intergenic
TCATGTGGATTGGAGGCTTT+CGG 0.349268 7:-86505047 MsaT039248.1:CDS
TGGCGGCCATCGTGAGAATT+GGG 0.354181 7:-86506562 MsaT039248.1:CDS
GGAATATTTATTTCAAGTAC+TGG 0.364580 7:-86505871 MsaT039248.1:CDS
GAAAAGCCGACTGAGGAAAA+AGG 0.365804 7:-86506191 MsaT039248.1:intron
CATACTTCTGCTAAGATTCA+TGG 0.370102 7:+86507345 None:intergenic
TTTAACTGAACTACAGTTGA+TGG 0.372572 7:-86504839 MsaT039248.1:CDS
TACCATTTCCACTCATTGAA+TGG 0.377090 7:+86505839 None:intergenic
TCGGTCATCTGAACTTCTTA+AGG 0.384806 7:-86505028 MsaT039248.1:intron
ATTTACATGGAATTATTAGA+TGG 0.388302 7:+86508251 None:intergenic
TCAATTTGGTGCTTTAAGTA+AGG 0.395237 7:-86506773 MsaT039248.1:intron
CTTTCCGAGACATTGGCTAA+TGG 0.402534 7:-86504739 MsaT039248.1:CDS
CTCAAAATCGTGAAGCTGCC+AGG 0.414559 7:-86506213 MsaT039248.1:CDS
AAAGCAAATAGCCAAGCTTT+AGG 0.415265 7:-86506805 MsaT039248.1:CDS
ACCCATTCAATGAGTGGAAA+TGG 0.422756 7:-86505841 MsaT039248.1:intron
GGAAAGCTTGGTACTCTTGA+GGG 0.428090 7:-86504649 MsaT039248.1:CDS
CTGTAGCTCTTGCTCTAGTT+GGG 0.432408 7:+86506028 None:intergenic
CTGCAATGCGTCCATTCCTT+GGG 0.435984 7:+86504768 None:intergenic
GTTGCAACGCTTGCTGCCTC+AGG 0.440813 7:+86504223 None:intergenic
TGAAAGATCAAAAGACAAAT+CGG 0.446752 7:-86506332 MsaT039248.1:CDS
TGGAAATGTGGCCAATTACA+TGG 0.448525 7:-86504692 MsaT039248.1:CDS
GCTGCAATGCGTCCATTCCT+TGG 0.454033 7:+86504767 None:intergenic
ATAGGCAAACCAATGAACTA+AGG 0.455979 7:-86505230 MsaT039248.1:CDS
CCAGAAGCACCTGATGGGTT+GGG 0.456476 7:+86504712 None:intergenic
GACACTAACAAAGTTGTTAA+CGG 0.457790 7:-86508293 MsaT039248.1:CDS
ACCATTTCCACTCATTGAAT+GGG 0.458496 7:+86505840 None:intergenic
GCTACAGCGAGCACGCCAGC+AGG 0.459908 7:-86506012 MsaT039248.1:intron
ACACTAACAAAGTTGTTAAC+GGG 0.460476 7:-86508292 MsaT039248.1:CDS
AAAAGACAAATCGGATCAAA+AGG 0.461930 7:-86506323 MsaT039248.1:intron
TCCAGAAGCACCTGATGGGT+TGG 0.465437 7:+86504711 None:intergenic
CTCAATTTGAAGATATCTAC+AGG 0.469063 7:-86505146 MsaT039248.1:CDS
GAAATCCTAGAGATTGTTCA+AGG 0.473552 7:+86507380 None:intergenic
CACATGAAACACCTCTCAGC+TGG 0.482882 7:+86505063 None:intergenic
GGGACAAATGGCTATGGCCA+TGG 0.486901 7:-86504671 MsaT039248.1:CDS
CAAGCGTTGCAACAAATGCT+TGG 0.487489 7:-86504213 MsaT039248.1:CDS
GGCCAATTACATGGGACAAA+TGG 0.487544 7:-86504683 MsaT039248.1:CDS
TGCAACAATTAGAGAGCAGC+AGG 0.488377 7:-86506061 MsaT039248.1:CDS
AATGGTTCACCCAACCCATC+AGG 0.491558 7:-86504721 MsaT039248.1:CDS
TGTTCAGGCGTTAAGACGGC+TGG 0.494145 7:-86506236 MsaT039248.1:intron
GGAGCCCTTGAACAATCTCT+AGG 0.499416 7:-86507385 MsaT039248.1:CDS
CTGCAATAAATTCTCATGCT+GGG 0.499442 7:-86505206 MsaT039248.1:CDS
TTGGATTTCAGGGGCATGGA+GGG 0.504205 7:-86507442 MsaT039248.1:intron
GAGAGGTGTTTCATGTGGAT+TGG 0.507638 7:-86505057 MsaT039248.1:CDS
GCTGCAATAAATTCTCATGC+TGG 0.516591 7:-86505207 MsaT039248.1:CDS
AGGTGTTTCATGTGGATTGG+AGG 0.518347 7:-86505054 MsaT039248.1:CDS
GAATATCAGCACCTAAAGCT+TGG 0.527661 7:+86506794 None:intergenic
GGGAGAGTCCAACATGGCTG+AGG 0.529600 7:-86506541 MsaT039248.1:CDS
GCAATCACTTTCCGAGACAT+TGG 0.530262 7:-86504746 MsaT039248.1:CDS
GCTTTCATTTGATTAAACAC+TGG 0.536527 7:+86506823 None:intergenic
TTAACTGAACTACAGTTGAT+GGG 0.537831 7:-86504838 MsaT039248.1:CDS
TACAGAAGACAAGAATCAAA+TGG 0.538000 7:-86506493 MsaT039248.1:intron
GCTATGGCCATGGGAAAGCT+TGG 0.544267 7:-86504661 MsaT039248.1:CDS
GGACAAATGGCTATGGCCAT+GGG 0.556028 7:-86504670 MsaT039248.1:CDS
AGACGCTCTTTCCCAAGGAA+TGG 0.556679 7:-86504779 MsaT039248.1:CDS
GGGAAAGCTTGGTACTCTTG+AGG 0.558797 7:-86504650 MsaT039248.1:CDS
ATCTCTAGGATTTCGTGTTG+AGG 0.565350 7:-86507371 MsaT039248.1:CDS
TTAGATGGAGGTGCGTAGCT+CGG 0.566017 7:+86508266 None:intergenic
AGCGCTTCCCTCAGCCATGT+TGG 0.566699 7:+86506533 None:intergenic
ACATTTCCAGAAGCACCTGA+TGG 0.566763 7:+86504706 None:intergenic
GAAGATATCTACAGGCTGAA+AGG 0.567290 7:-86505138 MsaT039248.1:CDS
TCCACATTCTATCAGGAATG+TGG 0.571375 7:-86505092 MsaT039248.1:CDS
TCTTGAGGGATTTCTTCGCC+AGG 0.573076 7:-86504635 MsaT039248.1:intron
ATCAGGTGCTTCTGGAAATG+TGG 0.573606 7:-86504704 MsaT039248.1:CDS
TGGTTATTGATGGGCAGTAG+AGG 0.574524 7:-86508329 None:intergenic
TACATGGAATTATTAGATGG+AGG 0.577181 7:+86508254 None:intergenic
TAGGCAAACCAATGAACTAA+GGG 0.579382 7:-86505229 MsaT039248.1:CDS
CATTTCCAGAAGCACCTGAT+GGG 0.580742 7:+86504707 None:intergenic
CAGCTGAGAGGTGTTTCATG+TGG 0.583907 7:-86505062 MsaT039248.1:CDS
TGCAATAAATTCTCATGCTG+GGG 0.590748 7:-86505205 MsaT039248.1:CDS
TCCACATTCCTGATAGAATG+TGG 0.593998 7:+86505091 None:intergenic
TTACATGGGACAAATGGCTA+TGG 0.598092 7:-86504677 MsaT039248.1:CDS
TGAAATTGTCGACAATGGTA+CGG 0.603907 7:+86505172 None:intergenic
GCTGAAGACGCTCTTTCCCA+AGG 0.608444 7:-86504784 MsaT039248.1:CDS
GAGCAGACCCATTCAATGAG+TGG 0.614912 7:-86505847 MsaT039248.1:CDS
GGAGAGTCCAACATGGCTGA+GGG 0.616774 7:-86506540 MsaT039248.1:CDS
CCAAAATCAGAAATTCGAGA+AGG 0.617363 7:+86507406 None:intergenic
TGAACCATTAGCCAATGTCT+CGG 0.617863 7:+86504735 None:intergenic
GGCGGCCATCGTGAGAATTG+GGG 0.627011 7:-86506561 MsaT039248.1:CDS
AAGAGTACCAAGCTTTCCCA+TGG 0.628858 7:+86504654 None:intergenic
GGAAATGTGGCCAATTACAT+GGG 0.630650 7:-86504691 MsaT039248.1:CDS
AATTTGGCTTCAACATCTGG+CGG 0.636343 7:-86506579 MsaT039248.1:CDS
TTTGGATTTCAGGGGCATGG+AGG 0.641756 7:-86507443 MsaT039248.1:intron
AGTCATGAAATTGTCGACAA+TGG 0.650887 7:+86505167 None:intergenic
CAGTAGAGGTAGAACTGCTG+AGG 0.651706 7:-86508315 MsaT039248.1:CDS
ACTCTCCCCAATTCTCACGA+TGG 0.657176 7:+86506556 None:intergenic
CTGCCAGGAAAAGCCGACTG+AGG 0.660519 7:-86506198 MsaT039248.1:CDS
GTTTATAGGCTGATAACCTG+AGG 0.665954 7:-86504239 MsaT039248.1:intron
AAATCCTAGAGATTGTTCAA+GGG 0.671979 7:+86507381 None:intergenic
TGTGGAAGACTCCAGCTGAG+AGG 0.690086 7:-86505074 MsaT039248.1:CDS
GAATTGGGGAGAGTCCAACA+TGG 0.702168 7:-86506547 MsaT039248.1:CDS
TTGATGCAGAATACGCACGA+TGG 0.731911 7:-86505266 MsaT039248.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 86504206 86508342 86504206 ID=MsaG039248
Chr7 mRNA 86504206 86508342 86504206 ID=MsaT039248.1;Parent=MsaG039248
Chr7 exon 86504206 86504253 86504206 ID=MsaT039248.1.exon11;Parent=MsaT039248.1
Chr7 CDS 86504206 86504253 86504206 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86504636 86504884 86504636 ID=MsaT039248.1.exon10;Parent=MsaT039248.1
Chr7 CDS 86504636 86504884 86504636 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86505029 86505300 86505029 ID=MsaT039248.1.exon9;Parent=MsaT039248.1
Chr7 CDS 86505029 86505300 86505029 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86505842 86505893 86505842 ID=MsaT039248.1.exon8;Parent=MsaT039248.1
Chr7 CDS 86505842 86505893 86505842 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86506013 86506090 86506013 ID=MsaT039248.1.exon7;Parent=MsaT039248.1
Chr7 CDS 86506013 86506090 86506013 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86506192 86506251 86506192 ID=MsaT039248.1.exon6;Parent=MsaT039248.1
Chr7 CDS 86506192 86506251 86506192 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86506324 86506395 86506324 ID=MsaT039248.1.exon5;Parent=MsaT039248.1
Chr7 CDS 86506324 86506395 86506324 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86506494 86506610 86506494 ID=MsaT039248.1.exon4;Parent=MsaT039248.1
Chr7 CDS 86506494 86506610 86506494 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86506774 86506847 86506774 ID=MsaT039248.1.exon3;Parent=MsaT039248.1
Chr7 CDS 86506774 86506847 86506774 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86507350 86507453 86507350 ID=MsaT039248.1.exon2;Parent=MsaT039248.1
Chr7 CDS 86507350 86507453 86507350 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Chr7 exon 86508257 86508342 86508257 ID=MsaT039248.1.exon1;Parent=MsaT039248.1
Chr7 CDS 86508257 86508342 86508257 ID=cds.MsaT039248.1;Parent=MsaT039248.1
Gene Sequence

>MsaT039248.1

ATGGGCAGTAGAGGTAGAACTGCTGAGGACACTAACAAAGTTGTTAACGGGATGCCGAGCTACGCACCTCCATCTAATAATTCCATGGGCATGGAGGGAACTAATATTCATCCTTCTCGAATTTCTGATTTTGGAGCCCTTGAACAATCTCTAGGATTTCGTGTTGAGGATGCCATGAATCTTAGCAGAAATCCAGTGTTTAATCAAATGAAAGCAAATAGCCAAGCTTTAGGTGCTGATATTCAATTTGGTGCTTTAAGTAAGACGCTGCCAAATTTGGCTTCAACATCTGGCGGCCATCGTGAGAATTGGGGAGAGTCCAACATGGCTGAGGGAAGCGCTGATACTTCAACAGATGATACAGAAGACAAGAATCAAATGCCATCTTCATTTTTGTTTTGCAGCCTGAAAGGGGAATCCAGTGAAAGATCAAAAGACAAATCGGATCAAAAGGCGTTAAGACGGCTGGCTCAAAATCGTGAAGCTGCCAGGAAAAGCCGACTGAGGAAAAAGGCATATGTGCAACAATTAGAGAGCAGCAGGCTGAAACTAACCCAACTAGAGCAAGAGCTACAGCGAGCACGCCAGCAGGGAATATTTATTTCAAGTACTGGAGAGCAGACCCATTCAATGAGTGGAAATGGTGCAATGGCATTTGATGCAGAATACGCACGATGGTTAGAAGAGCATAATAGGCAAACCAATGAACTAAGGGCTGCAATAAATTCTCATGCTGGGGATATTGAACTCCGTACCATTGTCGACAATTTCATGACTCAATTTGAAGATATCTACAGGCTGAAAGGTGTTGCAGCAAAAGCTGATGTTTTCCACATTCTATCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGTCATCTGAACTTCTTAAGCTTCTTGTAAGTCATTTGGAGCCTTTAACTGAACTACAGTTGATGGGTATCTACAACTTGCAACAGTCATCTCAACAAGCTGAAGACGCTCTTTCCCAAGGAATGGACGCATTGCAGCAATCACTTTCCGAGACATTGGCTAATGGTTCACCCAACCCATCAGGTGCTTCTGGAAATGTGGCCAATTACATGGGACAAATGGCTATGGCCATGGGAAAGCTTGGTACTCTTGAGGGATTTCTTCGCCAGGCTGATAACCTGAGGCAGCAAGCGTTGCAACAAATGCTTGGATATTAA
Protein sequence

>MsaT039248.1

MGSRGRTAEDTNKVVNGMPSYAPPSNNSMGMEGTNIHPSRISDFGALEQSLGFRVEDAMNLSRNPVFNQMKANSQALGADIQFGALSKTLPNLASTSGGHRENWGESNMAEGSADTSTDDTEDKNQMPSSFLFCSLKGESSERSKDKSDQKALRRLAQNREAARKSRLRKKAYVQQLESSRLKLTQLEQELQRARQQGIFISSTGEQTHSMSGNGAMAFDAEYARWLEEHNRQTNELRAAINSHAGDIELRTIVDNFMTQFEDIYRLKGVAAKADVFHILSGMWKTPAERCFMWIGGFRSSELLKLLVSHLEPLTELQLMGIYNLQQSSQQAEDALSQGMDALQQSLSETLANGSPNPSGASGNVANYMGQMAMAMGKLGTLEGFLRQADNLRQQALQQMLGY*