AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005478

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005478 MtrunA17_Chr1g0208771 87.556 450 18 1 35 446 12 461 0.0 811
MsaG005478 MtrunA17_Chr8g0390841 61.386 505 125 8 1 444 24 519 0.0 593
MsaG005478 MtrunA17_Chr1g0163071 46.333 300 109 6 36 286 2 298 1.06e-74 236
MsaG005478 MtrunA17_Chr7g0233561 32.890 301 155 9 18 275 16 312 1.67e-42 152
MsaG005478 MtrunA17_Chr3g0131891 33.441 311 136 8 15 275 14 303 1.25e-41 150
MsaG005478 MtrunA17_Chr3g0103181 31.769 277 162 7 18 274 10 279 1.20e-38 141
MsaG005478 MtrunA17_Chr3g0103181 35.965 114 68 3 330 442 170 279 5.71e-12 66.2
MsaG005478 MtrunA17_Chr7g0233541 32.542 295 128 10 36 275 2 280 2.66e-37 138
MsaG005478 MtrunA17_Chr3g0103191 39.080 174 96 3 18 184 10 180 5.70e-34 127
MsaG005478 MtrunA17_Chr7g0233531 32.117 274 140 8 36 275 2 263 6.85e-34 128
MsaG005478 MtrunA17_Chr3g0103151 40.667 150 80 2 18 160 10 157 3.23e-33 122
MsaG005478 MtrunA17_Chr3g0103171 30.651 261 160 6 35 274 5 265 2.02e-32 124
MsaG005478 MtrunA17_Chr3g0103171 38.519 135 77 3 309 442 136 265 4.05e-16 78.2
MsaG005478 MtrunA17_Chr7g0233521 33.456 272 139 10 36 275 2 263 4.55e-32 123
MsaG005478 MtrunA17_Chr7g0233571 33.649 211 117 5 20 223 10 204 3.87e-31 119
MsaG005478 MtrunA17_Chr1g0163181 25.373 469 240 14 29 441 14 428 1.28e-30 122
MsaG005478 MtrunA17_Chr3g0103201 32.301 226 121 6 75 274 1 220 1.92e-25 103
MsaG005478 MtrunA17_Chr5g0419201 32.558 172 92 5 5 160 2 165 1.10e-24 100
MsaG005478 MtrunA17_Chr1g0163221 26.774 310 190 11 10 289 1 303 9.28e-23 99.0
MsaG005478 MtrunA17_Chr1g0163261 25.342 292 195 4 19 289 8 297 1.38e-22 97.8
MsaG005478 MtrunA17_Chr3g0077451 25.670 261 145 6 34 278 10 237 2.34e-22 95.5
MsaG005478 MtrunA17_Chr4g0067431 25.159 314 179 10 15 279 10 316 1.83e-21 94.7
MsaG005478 MtrunA17_Chr1g0163131 27.211 294 174 9 15 271 13 303 1.27e-20 92.0
MsaG005478 MtrunA17_Chr5g0429931 25.882 255 155 6 35 276 10 243 7.34e-20 88.6
MsaG005478 MtrunA17_Chr4g0033961 37.963 108 67 0 20 127 6 113 1.38e-19 90.5
MsaG005478 MtrunA17_Chr1g0163231 24.315 292 160 8 20 273 9 277 1.16e-18 86.3
MsaG005478 MtrunA17_Chr3g0077411 24.028 283 169 7 17 276 259 518 2.30e-18 87.4
MsaG005478 MtrunA17_Chr3g0077411 24.096 249 152 6 20 265 25 239 8.38e-13 70.1
MsaG005478 MtrunA17_Chr6g0467351 29.801 151 101 2 16 165 11 157 3.32e-18 83.6
MsaG005478 MtrunA17_Chr1g0171611 40.404 99 57 1 20 118 9 105 4.05e-18 84.3
MsaG005478 MtrunA17_Chr1g0163251 25.478 314 199 9 29 319 14 315 5.30e-18 85.5
MsaG005478 MtrunA17_Chr1g0162441 35.036 137 74 3 20 141 7 143 2.40e-17 84.0
MsaG005478 MtrunA17_Chr1g0154161 27.817 284 168 11 25 279 36 311 3.25e-17 82.4
MsaG005478 MtrunA17_Chr6g0476181 31.818 154 97 4 36 189 2 147 1.26e-15 74.3
MsaG005478 MtrunA17_Chr1g0163191 37.778 90 54 1 29 118 14 101 2.25e-15 73.6
MsaG005478 MtrunA17_Chr3g0103161 37.288 118 69 3 330 446 14 127 3.14e-15 72.0
MsaG005478 MtrunA17_Chr1g0154131 28.358 268 149 10 34 263 196 458 4.92e-15 77.0
MsaG005478 MtrunA17_Chr3g0077461 27.778 252 148 9 20 266 237 459 9.43e-15 76.3
MsaG005478 MtrunA17_Chr3g0077461 33.333 84 56 0 35 118 22 105 1.36e-12 69.3
MsaG005478 MtrunA17_Chr3g0077431 25.108 231 124 6 64 278 1 198 2.42e-14 71.6
MsaG005478 MtrunA17_Chr1g0163101 33.613 119 76 2 14 132 11 126 2.64e-14 71.2
MsaG005478 MtrunA17_Chr1g0163241 38.095 84 50 1 35 118 22 103 4.64e-14 70.1
MsaG005478 MtrunA17_Chr1g0163121 40.426 94 53 2 34 127 9 99 5.20e-14 69.3
MsaG005478 MtrunA17_Chr1g0163201 39.286 84 49 1 35 118 18 99 7.79e-14 72.8
MsaG005478 MtrunA17_Chr1g0163061 33.010 103 68 1 17 118 12 114 3.25e-13 69.7
MsaG005478 MtrunA17_Chr1g0154071 33.333 129 72 3 21 136 157 284 1.41e-12 69.3
MsaG005478 MtrunA17_Chr4g0009491 29.677 155 98 4 12 161 213 361 3.49e-12 68.2
MsaG005478 MtrunA17_Chr1g0162411 35.354 99 62 1 20 118 7 103 4.30e-12 67.8
MsaG005478 MtrunA17_Chr3g0077381 31.765 85 58 0 34 118 34 118 1.86e-11 65.9
MsaG005478 MtrunA17_Chr3g0077381 29.221 154 100 3 12 161 235 383 2.62e-11 65.5
MsaG005478 MtrunA17_Chr3g0077361 31.000 100 68 1 20 118 40 139 2.71e-11 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005478 AT3G18990.1 28.144 334 165 8 20 278 6 339 2.35e-30 120
MsaG005478 AT3G18990.2 27.844 334 166 8 20 278 6 339 1.91e-29 118
MsaG005478 AT4G01580.1 36.538 104 66 0 19 122 29 132 9.25e-17 78.6
MsaG005478 AT3G18960.2 34.615 104 68 0 19 122 29 132 5.20e-16 76.6
MsaG005478 AT3G18960.1 34.615 104 68 0 19 122 29 132 8.99e-16 76.3
MsaG005478 AT1G49475.1 31.667 120 77 2 19 138 33 147 1.86e-14 72.0
MsaG005478 AT3G18960.3 35.227 88 57 0 35 122 8 95 2.08e-11 62.8
MsaG005478 AT1G49480.3 35.897 117 66 4 332 443 109 221 4.63e-11 63.2
MsaG005478 AT1G49480.1 35.897 117 66 4 332 443 109 221 4.63e-11 63.2
MsaG005478 AT1G49480.2 35.897 117 66 4 332 443 109 221 4.63e-11 63.2

Find 72 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAACAATCCAATTGAAATTT+TGG 0.104888 1:+81842099 MsaT005478.1:CDS
CCTAAACTTGTCCAAGTTAA+AGG 0.118978 1:+81842244 MsaT005478.1:CDS
ATCTGATAATAATTTGAAAT+TGG 0.143719 1:+81842792 MsaT005478.1:CDS
CTCAAATTGATAGTGAAATT+TGG 0.167485 1:-81843466 None:intergenic
GAACTTGAAATTTGTGATTT+TGG 0.194976 1:-81842151 None:intergenic
GTGAGACTGTACATATTCTT+AGG 0.199034 1:-81841388 None:intergenic
GGAAATACATTTGACTAAAA+AGG 0.231817 1:+81841901 MsaT005478.1:CDS
CTTGACCATGCTTCACATTC+AGG 0.239372 1:-81842397 None:intergenic
CCTTCACCCAACTTTGTTGC+TGG 0.270614 1:-81843787 None:intergenic
CCTTTAACTTGGACAAGTTT+AGG 0.279816 1:-81842244 None:intergenic
TGCTATTGATCATCTCAAAA+AGG 0.283820 1:-81842825 None:intergenic
TATCATGACAGCAGTGAAAA+AGG 0.315980 1:-81842488 None:intergenic
ACCCAACTTTGTTGCTGGTT+CGG 0.316172 1:-81843782 None:intergenic
TCAATTTGAGATCAAGTCAT+TGG 0.345291 1:+81843479 MsaT005478.1:CDS
TGCTCATCCAAAATTTCAAT+TGG 0.347442 1:-81842106 None:intergenic
TATTTCTCAGTGAAAGCATT+TGG 0.349857 1:-81841824 None:intergenic
TCTGATAATAATTTGAAATT+GGG 0.355411 1:+81842793 MsaT005478.1:CDS
GTACATATTCTTAGGGTTGC+TGG 0.358212 1:-81841380 None:intergenic
GACTGCAATGTTACAGTTTG+AGG 0.362858 1:+81843723 MsaT005478.1:CDS
TTCATTCTCGAGCAAGTACT+TGG 0.373540 1:+81843687 MsaT005478.1:CDS
AAAACTATTATGTCGTATAA+AGG 0.388718 1:+81843057 MsaT005478.1:CDS
GAAATTGAATATCGTGTTGA+CGG 0.403003 1:+81842058 MsaT005478.1:CDS
TGTAGAAGAAAATAAATTGC+AGG 0.404615 1:+81843822 MsaT005478.1:CDS
AAGCACAACATCTTCCTTGT+TGG 0.409928 1:-81843872 None:intergenic
CAAAGTGGATGTGAATTGAT+TGG 0.417163 1:-81843437 None:intergenic
CTTCACATTCAGGCATTTAG+TGG 0.427188 1:-81842387 None:intergenic
ATATTTGGATTCAAAGGGGT+TGG 0.428451 1:+81841930 MsaT005478.1:CDS
ATTTCCCATTCTTTCTCATC+GGG 0.433534 1:-81841884 None:intergenic
ATGGTGATATTTGGATTCAA+AGG 0.444319 1:+81841924 MsaT005478.1:CDS
AATTTATTATACCTTTAACT+TGG 0.446187 1:-81842255 None:intergenic
AACTTTGTTGCTGGTTCGGA+TGG 0.454779 1:-81843778 None:intergenic
TCCGAACCAGCAACAAAGTT+GGG 0.458098 1:+81843781 MsaT005478.1:CDS
TGGTGATATTTGGATTCAAA+GGG 0.458234 1:+81841925 MsaT005478.1:CDS
GGTCTACTCTTCTTGTGAGA+AGG 0.460496 1:-81842130 None:intergenic
ATTCTTAGGGTTGCTGGTCA+TGG 0.460769 1:-81841374 None:intergenic
TTGGATTCAAAGGGGTTGGA+AGG 0.464926 1:+81841934 MsaT005478.1:CDS
AGACTCCCGATGAGAAAGAA+TGG 0.468520 1:+81841879 MsaT005478.1:CDS
CAATCAATTCACATCCACTT+TGG 0.477065 1:+81843438 MsaT005478.1:CDS
TTTGAATCAGTTCATGGAGA+TGG 0.482390 1:+81842991 MsaT005478.1:intron
ACACATTATTCATTAGATCA+TGG 0.484576 1:+81841965 MsaT005478.1:CDS
TTCATGGAGATGGAATTAAC+TGG 0.486836 1:+81843001 MsaT005478.1:CDS
TATTTCCCATTCTTTCTCAT+CGG 0.492052 1:-81841885 None:intergenic
CAATTTGAGATCAAGTCATT+GGG 0.498692 1:+81843480 MsaT005478.1:CDS
TGAGACTGTACATATTCTTA+GGG 0.500244 1:-81841387 None:intergenic
GACTCCCGATGAGAAAGAAT+GGG 0.507920 1:+81841880 MsaT005478.1:CDS
TTGGATTACCTTGTGGTGGA+AGG 0.508508 1:-81842900 None:intergenic
ATCCGAACCAGCAACAAAGT+TGG 0.508654 1:+81843780 MsaT005478.1:CDS
GGATAATACATCACTTGTAC+AGG 0.514406 1:-81843757 None:intergenic
ACCTCAACAAATATTCAAGA+TGG 0.526205 1:+81841442 MsaT005478.1:CDS
AATTAGTACTTTAAAAGCAT+AGG 0.530987 1:-81842851 None:intergenic
GCTTTCACTGAGAAATATAG+TGG 0.532968 1:+81841830 MsaT005478.1:CDS
CAACAAAGTTGGGTGAAGGT+TGG 0.542982 1:+81843791 MsaT005478.1:CDS
TGGATTACCTTGTGGTGGAA+GGG 0.545050 1:-81842899 None:intergenic
GAAGAAAATAAATTGCAGGC+TGG 0.548366 1:+81843826 MsaT005478.1:CDS
TCGGGAGTCTTGAGAAACAT+TGG 0.550403 1:-81841866 None:intergenic
AACTCAAAGAAATTCACTGC+AGG 0.555404 1:+81843372 MsaT005478.1:CDS
ATTAACTGGTTAGAAACTGC+AGG 0.556059 1:+81843015 MsaT005478.1:CDS
AAAGAAATTCACTGCAGGCT+AGG 0.559813 1:+81843377 MsaT005478.1:CDS
TCCATCTTGAATATTTGTTG+AGG 0.562475 1:-81841443 None:intergenic
TTCATTAGATCATGGTCACA+TGG 0.571925 1:+81841973 MsaT005478.1:CDS
CATCTTGGATTACCTTGTGG+TGG 0.585751 1:-81842904 None:intergenic
TCATTGGGATGTTTACAGAC+CGG 0.600053 1:+81843495 MsaT005478.1:CDS
GGTGATATTTGGATTCAAAG+GGG 0.604343 1:+81841926 MsaT005478.1:CDS
ATTGACACAAGTGAAGATGT+CGG 0.614793 1:+81842196 MsaT005478.1:CDS
TATGTAAACCTCAAAATGAG+AGG 0.618304 1:-81842017 None:intergenic
CCAGCAACAAAGTTGGGTGA+AGG 0.622086 1:+81843787 MsaT005478.1:CDS
ACGGTAATAATCAACATGAA+CGG 0.624679 1:+81842077 MsaT005478.1:CDS
TCATTCTCGAGCAAGTACTT+GGG 0.630141 1:+81843688 MsaT005478.1:CDS
CAACATTCCCTTCCACCACA+AGG 0.632695 1:+81842892 MsaT005478.1:CDS
TGAAGCATGGTCAAGAGCAG+AGG 0.641697 1:+81842405 MsaT005478.1:CDS
TTGGCATACCTCAGGAACGA+AGG 0.641759 1:+81843348 MsaT005478.1:intron
AAATGCCTGAATGTGAAGCA+TGG 0.702749 1:+81842392 MsaT005478.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 81841370 81843924 81841370 ID=MsaG005478
Chr1 mRNA 81841370 81843924 81841370 ID=MsaT005478.1;Parent=MsaG005478
Chr1 exon 81841370 81841471 81841370 ID=MsaT005478.1.exon1;Parent=MsaT005478.1
Chr1 CDS 81841370 81841471 81841370 ID=cds.MsaT005478.1;Parent=MsaT005478.1
Chr1 exon 81841818 81842265 81841818 ID=MsaT005478.1.exon2;Parent=MsaT005478.1
Chr1 CDS 81841818 81842265 81841818 ID=cds.MsaT005478.1;Parent=MsaT005478.1
Chr1 exon 81842372 81842501 81842372 ID=MsaT005478.1.exon3;Parent=MsaT005478.1
Chr1 CDS 81842372 81842501 81842372 ID=cds.MsaT005478.1;Parent=MsaT005478.1
Chr1 exon 81842735 81842913 81842735 ID=MsaT005478.1.exon4;Parent=MsaT005478.1
Chr1 CDS 81842735 81842913 81842735 ID=cds.MsaT005478.1;Parent=MsaT005478.1
Chr1 exon 81843001 81843078 81843001 ID=MsaT005478.1.exon5;Parent=MsaT005478.1
Chr1 CDS 81843001 81843078 81843001 ID=cds.MsaT005478.1;Parent=MsaT005478.1
Chr1 exon 81843362 81843516 81843362 ID=MsaT005478.1.exon6;Parent=MsaT005478.1
Chr1 CDS 81843362 81843516 81843362 ID=cds.MsaT005478.1;Parent=MsaT005478.1
Chr1 exon 81843676 81843924 81843676 ID=MsaT005478.1.exon7;Parent=MsaT005478.1
Chr1 CDS 81843676 81843924 81843676 ID=cds.MsaT005478.1;Parent=MsaT005478.1
Gene Sequence

>MsaT005478.1

ATGTCCATGACCAGCAACCCTAAGAATATGTACAGTCTCACTGCTTCTGCTATTCGTTTCTTTAAGATTGTTACCTCAACAAATATTCAAGATGGAACCCTTAGAATTCCAAATGCTTTCACTGAGAAATATAGTGGTGATTTATCAAAGCCAATGTTTCTCAAGACTCCCGATGAGAAAGAATGGGAAATACATTTGACTAAAAAGGATGGTGATATTTGGATTCAAAGGGGTTGGAAGGAATTTGCTACACATTATTCATTAGATCATGGTCACATGGTTGTGTTTCAATATCAGAAAACCTCTCATTTTGAGGTTTACATATTTGACAAGAGTACTTTTGAAATTGAATATCGTGTTGACGGTAATAATCAACATGAACGGAACAATCCAATTGAAATTTTGGATGAGCAACCTTCTCACAAGAAGAGTAGACCAAAATCACAAATTTCAAGTTCTCAACCACTTAAAAAATTGAGAATTGACACAAGTGAAGATGTCGGAACAAGCTCCAAATCGCAAAACATTCCTAAACTTGTCCAAGTTAAAGAAGAGATTGATTCTACCACTAAATGCCTGAATGTGAAGCATGGTCAAGAGCAGAGGAATTCAACTGCTAAAATTCTTGAAGCTTTAAACAAAGCAAAAATCTATGAATCTAACAATCCTTTTTCACTGCTAACTTGGATTGTTAAATATTGTATGAGAAAAATTAGTAGCGGATGGAAAACATTTGTATCTGATAATAATTTGAAATTGGGAGATGTTTGCCTTTTTGAGATGATCAATAGCAAATCCTATGCTTTTAAAGTACTAATTTTTCGAGTTGACGAAGAACAACATTCCCTTCCACCACAAGTTCATGGAGATGGAATTAACTGGTTAGAAACTGCAGGAATCACAGAAGTTGAAAGTAAAACTATTATGTCGTATAAAGGAACGAAGGAAACTCAAAGAAATTCACTGCAGGCTAGGCCATGCTCCTTCAAAAATTCTGAAGCTAAGAAAGAAGCCAATCAATTCACATCCACTTTGGAAAAACCAAATTTCACTATCAATTTGAGATCAAGTCATTGGGATGTTTACAGACCGCGTGTACGAAATTCATTCTCGAGCAAGTACTTGGGTCCCAAAAAGAAGACTGCAATGTTACAGTTTGAGGAAAAATTGTGGCCTGTACAAGTGATGTATTATCCATCCGAACCAGCAACAAAGTTGGGTGAAGGTTGGAGTCTGTTTGTAGAAGAAAATAAATTGCAGGCTGGAGATGTATGTGTTTTTGTGCTTGCCAACAAGGAAGATGTTGTGCTTGATGTTCATATTTTCAGAGGACGCAGTTAG
Protein sequence

>MsaT005478.1

MSMTSNPKNMYSLTASAIRFFKIVTSTNIQDGTLRIPNAFTEKYSGDLSKPMFLKTPDEKEWEIHLTKKDGDIWIQRGWKEFATHYSLDHGHMVVFQYQKTSHFEVYIFDKSTFEIEYRVDGNNQHERNNPIEILDEQPSHKKSRPKSQISSSQPLKKLRIDTSEDVGTSSKSQNIPKLVQVKEEIDSTTKCLNVKHGQEQRNSTAKILEALNKAKIYESNNPFSLLTWIVKYCMRKISSGWKTFVSDNNLKLGDVCLFEMINSKSYAFKVLIFRVDEEQHSLPPQVHGDGINWLETAGITEVESKTIMSYKGTKETQRNSLQARPCSFKNSEAKKEANQFTSTLEKPNFTINLRSSHWDVYRPRVRNSFSSKYLGPKKKTAMLQFEEKLWPVQVMYYPSEPATKLGEGWSLFVEENKLQAGDVCVFVLANKEDVVLDVHIFRGRS*