AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012453

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012453 MtrunA17_Chr3g0080341 96.894 322 10 0 1 322 1 322 0.0 647
MsaG012453 MtrunA17_Chr8g0355121 65.260 308 92 4 16 322 20 313 5.17e-138 393
MsaG012453 MtrunA17_Chr7g0254991 49.530 319 127 9 20 320 16 318 7.70e-84 256
MsaG012453 MtrunA17_Chr6g0460301 50.621 322 126 9 19 322 15 321 2.85e-80 246
MsaG012453 MtrunA17_Chr4g0044771 36.176 340 154 13 20 301 18 352 1.80e-42 150
MsaG012453 MtrunA17_Chr5g0440841 46.067 178 76 6 1 170 1 166 1.14e-34 127
MsaG012453 MtrunA17_Chr5g0440841 57.955 88 37 0 235 322 182 269 5.32e-23 96.3
MsaG012453 MtrunA17_Chr2g0321411 33.968 315 139 10 23 320 11 273 1.05e-33 125
MsaG012453 MtrunA17_Chr2g0321381 36.271 295 152 10 12 294 14 284 4.34e-28 110
MsaG012453 MtrunA17_Chr3g0133971 48.361 122 56 2 19 138 26 142 7.28e-27 109
MsaG012453 MtrunA17_Chr3g0133971 42.202 109 60 1 189 297 293 398 1.26e-17 83.2
MsaG012453 MtrunA17_Chr7g0266211 43.182 132 56 3 26 138 45 176 1.81e-20 91.3
MsaG012453 MtrunA17_Chr5g0424871 29.054 296 167 8 16 273 8 298 9.12e-20 87.8
MsaG012453 MtrunA17_Chr4g0051101 42.718 103 53 2 196 296 77 175 7.88e-14 69.3
MsaG012453 MtrunA17_Chr1g0201751 62.745 51 19 0 246 296 157 207 3.51e-12 65.5
MsaG012453 MtrunA17_Chr5g0405951 57.627 59 13 1 251 297 166 224 9.23e-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
MsaG012453 AT3G56850.1 52.396 313 120 8 14 322 10 297 2.00e-88 267
MsaG012453 AT2G41070.3 48.418 316 101 10 10 322 6 262 4.55e-75 231
MsaG012453 AT2G41070.1 48.418 316 101 10 10 322 6 262 4.55e-75 231
MsaG012453 AT2G41070.2 48.418 316 101 10 10 322 6 262 4.55e-75 231
MsaG012453 AT2G41070.4 48.418 316 101 10 10 322 15 271 4.71e-75 232
MsaG012453 AT2G41070.5 47.931 290 89 10 10 296 6 236 3.45e-64 203
MsaG012453 AT1G49720.2 34.320 338 162 7 18 296 21 357 3.77e-45 159
MsaG012453 AT1G49720.1 34.320 338 162 7 18 296 21 357 4.02e-45 158
MsaG012453 AT1G49720.3 34.320 338 162 7 18 296 21 357 4.02e-45 158
MsaG012453 AT2G36270.1 32.346 405 169 13 12 315 30 430 4.41e-37 138
MsaG012453 AT2G36270.2 32.346 405 169 13 12 315 30 430 4.41e-37 138
MsaG012453 AT2G36270.3 32.976 373 155 12 12 293 30 398 2.53e-35 133
MsaG012453 AT3G44460.1 37.705 305 131 13 14 294 22 291 1.82e-29 115
MsaG012453 AT3G19290.2 43.046 151 65 3 9 138 21 171 3.01e-25 105
MsaG012453 AT3G19290.4 43.046 151 65 3 9 138 21 171 3.26e-25 105
MsaG012453 AT3G19290.4 37.857 140 64 4 178 296 260 397 6.27e-14 72.4
MsaG012453 AT3G19290.1 43.046 151 65 3 9 138 21 171 4.19e-25 105
MsaG012453 AT3G19290.1 37.857 140 64 4 178 296 260 397 7.75e-14 72.4
MsaG012453 AT3G19290.5 43.046 151 65 3 9 138 21 171 4.19e-25 105
MsaG012453 AT3G19290.5 37.857 140 64 4 178 296 260 397 7.75e-14 72.4
MsaG012453 AT3G19290.3 43.046 151 65 3 9 138 21 171 4.31e-25 105
MsaG012453 AT3G19290.3 37.857 140 64 4 178 296 260 397 7.35e-14 72.4
MsaG012453 AT5G42910.1 28.533 368 175 13 20 319 20 367 2.10e-23 99.4
MsaG012453 AT4G34000.3 34.715 193 77 6 19 171 26 209 8.30e-22 95.9
MsaG012453 AT4G34000.3 60.000 60 24 0 237 296 359 418 1.82e-15 77.0
MsaG012453 AT4G34000.1 34.197 193 78 5 19 171 26 209 1.08e-21 95.5
MsaG012453 AT4G34000.1 60.000 65 25 1 237 301 359 422 2.39e-15 77.0
MsaG012453 AT4G34000.4 34.197 193 78 5 19 171 26 209 1.08e-21 95.5
MsaG012453 AT4G34000.4 60.000 65 25 1 237 301 359 422 2.39e-15 77.0
MsaG012453 AT4G34000.2 34.197 193 78 5 19 171 26 209 1.08e-21 95.5
MsaG012453 AT4G34000.2 60.000 65 25 1 237 301 359 422 2.39e-15 77.0
MsaG012453 AT1G45249.10 41.791 134 60 3 20 138 21 151 2.26e-21 94.0
MsaG012453 AT1G45249.5 41.791 134 60 3 20 138 21 151 2.26e-21 94.0
MsaG012453 AT1G45249.4 41.791 134 60 3 20 138 21 151 3.93e-21 93.6
MsaG012453 AT1G45249.8 41.791 134 60 3 20 138 21 151 3.93e-21 93.6
MsaG012453 AT1G45249.2 41.791 134 60 3 20 138 21 151 3.93e-21 93.6
MsaG012453 AT1G45249.9 41.791 134 60 3 20 138 21 151 3.93e-21 93.6
MsaG012453 AT1G45249.1 41.791 134 60 3 20 138 21 151 4.09e-21 93.6
MsaG012453 AT1G45249.1 39.860 143 61 5 195 320 280 414 9.88e-18 83.6
MsaG012453 AT1G45249.7 41.791 134 60 3 20 138 36 166 4.28e-21 93.6
MsaG012453 AT1G45249.7 39.860 143 61 5 195 320 295 429 1.38e-17 83.6
MsaG012453 AT1G45249.6 41.791 134 60 3 20 138 36 166 4.28e-21 93.6
MsaG012453 AT1G45249.6 39.860 143 61 5 195 320 295 429 1.38e-17 83.6
MsaG012453 AT1G45249.3 41.791 134 60 3 20 138 21 151 5.30e-21 93.2
MsaG012453 AT1G45249.3 37.013 154 61 6 195 320 280 425 6.98e-15 75.5
MsaG012453 AT4G35900.1 51.163 86 40 2 237 322 202 285 2.08e-16 78.6
MsaG012453 AT2G17770.2 48.837 86 42 2 237 322 112 195 2.36e-14 70.9
MsaG012453 AT5G44080.1 32.353 204 91 8 96 297 120 278 2.72e-14 72.8
MsaG012453 AT1G03970.1 31.373 204 84 6 96 297 85 234 3.38e-14 72.0

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGCGACGAAGCTGGCATTT+AGG 0.252772 3:+24913202 None:intergenic
AAAAGACGGTTGATGAAGTT+TGG 0.324474 3:-24914902 MsaT012453.1:CDS
GATTCAACAACACTGACTTT+AGG 0.341594 3:+24914729 None:intergenic
TTTGGGTGAGATGACATTAG+AGG 0.364587 3:-24914820 MsaT012453.1:CDS
ACGAAGCTGGCATTTAGGTT+CGG 0.387515 3:+24913207 None:intergenic
TCAAGAGATGCAGTCTACTT+TGG 0.394291 3:-24914838 MsaT012453.1:CDS
GCCACCTGACCATCTGTATA+CGG 0.395127 3:+24914546 None:intergenic
CGAAGCTGGCATTTAGGTTC+GGG 0.399153 3:+24913208 None:intergenic
GGTTAAAGCAGGCGTTGTTT+CGG 0.403853 3:-24914790 MsaT012453.1:CDS
CAACCTAATCTGTCGTTAAC+CGG 0.406252 3:-24914936 MsaT012453.1:CDS
CAAGAGATGCAGTCTACTTT+GGG 0.419918 3:-24914837 MsaT012453.1:CDS
CAGAATCACTTAGGTGACTT+AGG 0.427650 3:-24915083 MsaT012453.1:CDS
AGAAGAGGATGATTAAGAAT+CGG 0.435534 3:-24914425 MsaT012453.1:CDS
TCAAGGTTCATACTACTTAG+TGG 0.444599 3:+24915056 None:intergenic
CCAGAGGCTGGAATTGCGGT+TGG 0.448828 3:+24915147 None:intergenic
GAAGAGGATGATTAAGAATC+GGG 0.454965 3:-24914424 MsaT012453.1:CDS
CAGTCATTGCACATGGCAGC+CGG 0.472274 3:-24914588 MsaT012453.1:CDS
CAAAGTCTCGCGTCTGGAAG+AGG 0.475416 3:-24914239 MsaT012453.1:CDS
CGCGCCAGAGGCTGGAATTG+CGG 0.479085 3:+24915143 None:intergenic
GGACCGGTTAACGACAGATT+AGG 0.482657 3:+24914933 None:intergenic
GCGCTCAAGAGCAAGGAAAC+AGG 0.483729 3:-24914391 MsaT012453.1:intron
GGAGATCAAAGTCTCGCGTC+TGG 0.487266 3:-24914245 MsaT012453.1:CDS
CATGGCAGCCGGTGCTCCAT+CGG 0.496616 3:-24914577 MsaT012453.1:CDS
CCAACCGCAATTCCAGCCTC+TGG 0.504611 3:-24915147 MsaT012453.1:CDS
GATGAAGTTCAGAATCACTT+AGG 0.504785 3:-24915092 MsaT012453.1:CDS
TCTGAACTTCATCAAGGGTA+AGG 0.505070 3:+24915102 None:intergenic
GTCCTCTCAATCATGTCCTC+CGG 0.505376 3:+24914462 None:intergenic
ATCTGCGAGAAAGCGGGGAC+CGG 0.507079 3:-24914481 MsaT012453.1:CDS
TGGCATTTAGGTTCGGGTGG+TGG 0.513608 3:+24913214 None:intergenic
TCAGATAAGTTTCCTACCAC+TGG 0.525861 3:+24914513 None:intergenic
GACTGAGCTATGATCTGGCT+CGG 0.527606 3:+24914606 None:intergenic
CTGTTGAGAGGAAGCAGAAG+AGG 0.527853 3:-24914440 MsaT012453.1:CDS
TACAGATGGTCAGGTGGCGT+TGG 0.529554 3:-24914541 MsaT012453.1:CDS
ACAGAAATCTGCGAGAAAGC+GGG 0.534375 3:-24914487 MsaT012453.1:CDS
AACGAGGACACAGCGCAAGC+CGG 0.540740 3:-24914978 MsaT012453.1:CDS
AGTGATTCTGAACTTCATCA+AGG 0.543380 3:+24915096 None:intergenic
AACGCCGTCCGATGGAGCAC+CGG 0.546844 3:+24914569 None:intergenic
CTGCTGCGCGCTCAAGAGCA+AGG 0.547968 3:-24914398 MsaT012453.1:CDS
CGCAATTCCAGCCTCTGGCG+CGG 0.552340 3:-24915142 MsaT012453.1:CDS
CGTTCCGTATACAGATGGTC+AGG 0.553919 3:-24914550 MsaT012453.1:CDS
TGCTGTGGATGCTGATAGTG+TGG 0.563676 3:+24914651 None:intergenic
TTAGGCATACACAACTGAGT+TGG 0.564109 3:-24914266 MsaT012453.1:intron
TGCGAGAAAGCGGGGACCGG+AGG 0.566566 3:-24914478 MsaT012453.1:CDS
GGCAAACCAATCAATTCGCA+TGG 0.566719 3:-24915003 MsaT012453.1:CDS
CACAGAAATCTGCGAGAAAG+CGG 0.574514 3:-24914488 MsaT012453.1:CDS
GTATACGGAACGCCGTCCGA+TGG 0.577145 3:+24914561 None:intergenic
CTGATGATACGCGACGAAGC+TGG 0.577434 3:+24913194 None:intergenic
TGAAAAGCTGAGGAAAGAGA+AGG 0.578797 3:-24914212 MsaT012453.1:intron
GCAGCCGGTGCTCCATCGGA+CGG 0.579352 3:-24914573 MsaT012453.1:CDS
GCATCCACAGCAAAGTGTGA+TGG 0.583686 3:-24914640 MsaT012453.1:CDS
AGCTGGCATTTAGGTTCGGG+TGG 0.592805 3:+24913211 None:intergenic
GCAATGACTGAGCTATGATC+TGG 0.599628 3:+24914601 None:intergenic
TACTGTATCCACGGACCATG+TGG 0.602459 3:+24914681 None:intergenic
ACAACACTGACTTTAGGAGT+AGG 0.608724 3:+24914735 None:intergenic
ATCAATTCGCATGGAAAACG+AGG 0.609101 3:-24914994 MsaT012453.1:CDS
GTGATTCTGAACTTCATCAA+GGG 0.610620 3:+24915097 None:intergenic
CATAGCTCAGTCATTGCACA+TGG 0.615121 3:-24914595 MsaT012453.1:CDS
GACCGGAGGACATGATTGAG+AGG 0.620098 3:-24914464 MsaT012453.1:CDS
GCGTTGGCTTCACCAGTGGT+AGG 0.620523 3:-24914525 MsaT012453.1:CDS
GTCGCCATCACACTTTGCTG+TGG 0.628005 3:+24914636 None:intergenic
AAGAGGAAAATGAAAAGCTG+AGG 0.635284 3:-24914222 MsaT012453.1:CDS
GGTTGTGCATACTGTATCCA+CGG 0.641304 3:+24914672 None:intergenic
TGATTGAGAGGACTGTTGAG+AGG 0.642725 3:-24914452 MsaT012453.1:CDS
GGTGGCGTTGGCTTCACCAG+TGG 0.643645 3:-24914529 MsaT012453.1:CDS
CAGAAATCTGCGAGAAAGCG+GGG 0.644702 3:-24914486 MsaT012453.1:CDS
CCAACAAAACAACGATCATG+AGG 0.650306 3:-24914871 MsaT012453.1:CDS
GACGGCGTTCCGTATACAGA+TGG 0.652010 3:-24914555 MsaT012453.1:CDS
TCCGTATACAGATGGTCAGG+TGG 0.656234 3:-24914547 MsaT012453.1:CDS
ACAAAACAACGATCATGAGG+AGG 0.694318 3:-24914868 MsaT012453.1:CDS
GGACCATGTGGAGAAAACTG+TGG 0.769588 3:+24914693 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 24913183 24915207 24913183 ID=MsaG012453
Chr3 mRNA 24913183 24915207 24913183 ID=MsaT012453.1;Parent=MsaG012453
Chr3 exon 24913183 24913263 24913183 ID=MsaT012453.1.exon3;Parent=MsaT012453.1
Chr3 CDS 24913183 24913263 24913183 ID=cds.MsaT012453.1;Parent=MsaT012453.1
Chr3 exon 24914213 24914284 24914213 ID=MsaT012453.1.exon2;Parent=MsaT012453.1
Chr3 CDS 24914213 24914284 24914213 ID=cds.MsaT012453.1;Parent=MsaT012453.1
Chr3 exon 24914392 24915207 24914392 ID=MsaT012453.1.exon1;Parent=MsaT012453.1
Chr3 CDS 24914392 24915207 24914392 ID=cds.MsaT012453.1;Parent=MsaT012453.1
Gene Sequence

>MsaT012453.1

ATGGGGTCTCAAGTTGTTGATGAAAGTAATAATGAAAACCAACCGCAATTCCAGCCTCTGGCGCGGCAAAATTCAATGTACAACCTTACCCTTGATGAAGTTCAGAATCACTTAGGTGACTTAGGAAAGCCACTAAGTAGTATGAACCTTGACGAGCTTCTGAAAAATGTATGGACTGTTGAGGCAAACCAATCAATTCGCATGGAAAACGAGGACACAGCGCAAGCCGGACAAGTTGTTTTTCAACGTCAACCTAATCTGTCGTTAACCGGTCCGTTAAGCAAAAAGACGGTTGATGAAGTTTGGAGAGATATCCAACAAAACAACGATCATGAGGAGGTGAAGTCTCAAGAGATGCAGTCTACTTTGGGTGAGATGACATTAGAGGATTTTTTGGTTAAAGCAGGCGTTGTTTCGGCTGCATCTTCAAATAGAAAGAATACTAATAGTCCTACTCCTAAAGTCAGTGTTGTTGAATCGAATGTAGCGTTGCCACAGTTTTCTCCACATGGTCCGTGGATACAGTATGCACAACCACACTATCAGCATCCACAGCAAAGTGTGATGGCGACTTATGTTCCGAGCCAGATCATAGCTCAGTCATTGCACATGGCAGCCGGTGCTCCATCGGACGGCGTTCCGTATACAGATGGTCAGGTGGCGTTGGCTTCACCAGTGGTAGGAAACTTATCTGATACACAGAAATCTGCGAGAAAGCGGGGACCGGAGGACATGATTGAGAGGACTGTTGAGAGGAAGCAGAAGAGGATGATTAAGAATCGGGAATCTGCTGCGCGCTCAAGAGCAAGGAAACAGGCATACACAACTGAGTTGGAGATCAAAGTCTCGCGTCTGGAAGAGGAAAATGAAAAGCTGAGGAAAGAGAAGGAGCTTGAGAACATGCTAGCTAATGCTCCACCACCCGAACCTAAATGCCAGCTTCGTCGCGTATCATCAGCTTCGTTTTGA
Protein sequence

>MsaT012453.1

MGSQVVDESNNENQPQFQPLARQNSMYNLTLDEVQNHLGDLGKPLSSMNLDELLKNVWTVEANQSIRMENEDTAQAGQVVFQRQPNLSLTGPLSKKTVDEVWRDIQQNNDHEEVKSQEMQSTLGEMTLEDFLVKAGVVSAASSNRKNTNSPTPKVSVVESNVALPQFSPHGPWIQYAQPHYQHPQQSVMATYVPSQIIAQSLHMAAGAPSDGVPYTDGQVALASPVVGNLSDTQKSARKRGPEDMIERTVERKQKRMIKNRESAARSRARKQAYTTELEIKVSRLEEENEKLRKEKELENMLANAPPPEPKCQLRRVSSASF*