AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012177

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012177 MtrunA17_Chr3g0080341 97.826 322 7 0 1 322 1 322 0.0 655
MsaG012177 MtrunA17_Chr8g0355121 65.696 309 91 4 15 322 19 313 9.91e-139 395
MsaG012177 MtrunA17_Chr7g0254991 49.216 319 128 9 20 320 16 318 1.44e-82 252
MsaG012177 MtrunA17_Chr6g0460301 50.294 340 132 10 1 322 1 321 1.65e-81 250
MsaG012177 MtrunA17_Chr4g0044771 36.176 340 154 11 20 301 18 352 7.24e-42 149
MsaG012177 MtrunA17_Chr5g0440841 46.591 176 73 6 1 170 6 166 7.13e-35 127
MsaG012177 MtrunA17_Chr5g0440841 57.955 88 37 0 235 322 182 269 5.71e-23 96.3
MsaG012177 MtrunA17_Chr2g0321411 33.333 315 141 10 23 320 11 273 1.60e-32 122
MsaG012177 MtrunA17_Chr2g0321381 36.271 295 152 10 12 294 14 284 1.43e-28 112
MsaG012177 MtrunA17_Chr3g0133971 48.361 122 56 2 19 138 26 142 1.79e-26 108
MsaG012177 MtrunA17_Chr3g0133971 42.202 109 60 1 189 297 293 398 1.42e-17 82.8
MsaG012177 MtrunA17_Chr5g0424871 29.054 296 167 7 16 273 8 298 7.08e-21 90.9
MsaG012177 MtrunA17_Chr7g0266211 43.939 132 55 4 26 138 45 176 3.18e-20 90.5
MsaG012177 MtrunA17_Chr4g0051101 42.718 103 53 2 196 296 77 175 7.28e-14 69.3
MsaG012177 MtrunA17_Chr1g0201751 62.745 51 19 0 246 296 157 207 3.38e-12 65.5
MsaG012177 MtrunA17_Chr5g0405951 28.980 245 108 10 98 297 1 224 7.64e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012177 AT3G56850.1 53.074 309 116 8 18 322 14 297 1.07e-88 268
MsaG012177 AT2G41070.4 48.701 308 96 10 18 322 23 271 1.31e-72 226
MsaG012177 AT2G41070.3 48.701 308 96 10 18 322 14 262 1.40e-72 225
MsaG012177 AT2G41070.1 48.701 308 96 10 18 322 14 262 1.40e-72 225
MsaG012177 AT2G41070.2 48.701 308 96 10 18 322 14 262 1.40e-72 225
MsaG012177 AT2G41070.5 48.227 282 84 10 18 296 14 236 1.20e-61 197
MsaG012177 AT1G49720.2 35.312 337 160 7 18 296 21 357 6.20e-47 163
MsaG012177 AT1G49720.1 35.312 337 160 7 18 296 21 357 7.45e-47 163
MsaG012177 AT1G49720.3 35.312 337 160 7 18 296 21 357 7.45e-47 163
MsaG012177 AT2G36270.3 32.275 378 151 13 12 293 30 398 1.63e-32 125
MsaG012177 AT2G36270.1 31.387 411 165 16 12 315 30 430 1.91e-31 122
MsaG012177 AT2G36270.2 31.387 411 165 16 12 315 30 430 1.91e-31 122
MsaG012177 AT3G44460.1 37.209 301 129 13 15 294 30 291 5.67e-29 114
MsaG012177 AT3G19290.4 44.604 139 58 2 19 138 33 171 3.97e-25 104
MsaG012177 AT3G19290.4 37.857 140 64 4 178 296 260 397 7.27e-14 72.4
MsaG012177 AT3G19290.2 44.604 139 58 2 19 138 33 171 4.17e-25 104
MsaG012177 AT3G19290.3 44.604 139 58 2 19 138 33 171 4.49e-25 105
MsaG012177 AT3G19290.3 37.857 140 64 4 178 296 260 397 8.44e-14 72.0
MsaG012177 AT3G19290.1 44.604 139 58 2 19 138 33 171 4.67e-25 104
MsaG012177 AT3G19290.1 37.857 140 64 4 178 296 260 397 8.11e-14 72.0
MsaG012177 AT3G19290.5 44.604 139 58 2 19 138 33 171 4.67e-25 104
MsaG012177 AT3G19290.5 37.857 140 64 4 178 296 260 397 8.11e-14 72.0
MsaG012177 AT5G42910.1 28.804 368 174 14 20 319 20 367 1.79e-23 99.8
MsaG012177 AT4G34000.3 34.359 195 75 6 19 171 26 209 1.18e-21 95.5
MsaG012177 AT4G34000.3 60.000 60 24 0 237 296 359 418 1.92e-15 77.0
MsaG012177 AT4G34000.1 34.359 195 75 6 19 171 26 209 1.37e-21 95.1
MsaG012177 AT4G34000.1 60.000 65 25 1 237 301 359 422 2.53e-15 76.6
MsaG012177 AT4G34000.4 34.359 195 75 6 19 171 26 209 1.37e-21 95.1
MsaG012177 AT4G34000.4 60.000 65 25 1 237 301 359 422 2.53e-15 76.6
MsaG012177 AT4G34000.2 34.359 195 75 6 19 171 26 209 1.37e-21 95.1
MsaG012177 AT4G34000.2 60.000 65 25 1 237 301 359 422 2.53e-15 76.6
MsaG012177 AT1G45249.10 41.791 134 60 3 20 138 21 151 1.83e-21 94.0
MsaG012177 AT1G45249.5 41.791 134 60 3 20 138 21 151 1.83e-21 94.0
MsaG012177 AT1G45249.4 41.791 134 60 3 20 138 21 151 3.67e-21 93.6
MsaG012177 AT1G45249.8 41.791 134 60 3 20 138 21 151 3.67e-21 93.6
MsaG012177 AT1G45249.2 41.791 134 60 3 20 138 21 151 3.67e-21 93.6
MsaG012177 AT1G45249.9 41.791 134 60 3 20 138 21 151 3.67e-21 93.6
MsaG012177 AT1G45249.1 41.791 134 60 3 20 138 21 151 3.68e-21 93.6
MsaG012177 AT1G45249.1 39.860 143 61 5 195 320 280 414 1.12e-17 83.6
MsaG012177 AT1G45249.7 41.791 134 60 3 20 138 36 166 4.49e-21 93.6
MsaG012177 AT1G45249.7 39.860 143 61 5 195 320 295 429 1.70e-17 83.2
MsaG012177 AT1G45249.6 41.791 134 60 3 20 138 36 166 4.49e-21 93.6
MsaG012177 AT1G45249.6 39.860 143 61 5 195 320 295 429 1.70e-17 83.2
MsaG012177 AT1G45249.3 41.791 134 60 3 20 138 21 151 5.10e-21 93.2
MsaG012177 AT1G45249.3 37.013 154 61 6 195 320 280 425 8.80e-15 75.1
MsaG012177 AT4G35900.1 51.163 86 40 2 237 322 202 285 2.27e-16 78.6
MsaG012177 AT2G17770.2 48.837 86 42 2 237 322 112 195 2.63e-14 70.9
MsaG012177 AT5G44080.1 33.010 206 87 9 96 297 120 278 3.44e-14 72.4
MsaG012177 AT1G03970.1 31.863 204 83 7 96 297 85 234 5.31e-14 71.2

Find 71 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:-20270819 None:intergenic
AGAAGACGGTTGATGAAGTT+TGG 0.321664 3:+20269120 MsaT012177.1:CDS
CCTCATGATCGTTGCTTTGT+TGG 0.333071 3:-20269151 None:intergenic
GATTCAACAACACTGACTTT+AGG 0.341594 3:-20269293 None:intergenic
TTTGGGTGAGATGACATTAG+AGG 0.364587 3:+20269202 MsaT012177.1:CDS
TCAACCGTCTTCTTGCTTAA+CGG 0.378968 3:-20269110 None:intergenic
ACGAAGCTGGCATTTAGGTT+CGG 0.387515 3:-20270814 None:intergenic
GCCACCTGACCATCTGTATA+CGG 0.395127 3:-20269476 None:intergenic
CACAGAAATCTGCGAGAAAA+CGG 0.396824 3:+20269534 MsaT012177.1:CDS
CGAAGCTGGCATTTAGGTTC+GGG 0.399153 3:-20270813 None:intergenic
GGTTAAAGCAGGCGTTGTTT+CGG 0.403853 3:+20269232 MsaT012177.1:CDS
CAACCTAATCTGTCGTTAAC+CGG 0.406252 3:+20269086 MsaT012177.1:CDS
CAGTCATTGCACATGGCAGC+CGG 0.410543 3:+20269434 MsaT012177.1:CDS
ACAGAAATCTGCGAGAAAAC+GGG 0.427381 3:+20269535 MsaT012177.1:CDS
CAGAATCACTTAGGTGACTT+AGG 0.427650 3:+20268939 MsaT012177.1:CDS
CGAGAGATACAATCTACTTT+GGG 0.433847 3:+20269185 MsaT012177.1:CDS
TCGAGAGATACAATCTACTT+TGG 0.443050 3:+20269184 MsaT012177.1:CDS
TCAAATAGAAAGAATACTAA+TGG 0.443190 3:+20269263 MsaT012177.1:CDS
TCAAGGTTCATACTACTTAG+TGG 0.444599 3:-20268966 None:intergenic
CATGGCAGCCGGTGCTCCAT+CGG 0.463801 3:+20269445 MsaT012177.1:CDS
CAAAGTCTCGCGTCTGGAAG+AGG 0.475416 3:+20269783 MsaT012177.1:CDS
GGACCGGTTAACGACAGATT+AGG 0.482657 3:-20269089 None:intergenic
GCGCTCAAGAGCAAGGAAAC+AGG 0.483729 3:+20269631 MsaT012177.1:CDS
GGAGATCAAAGTCTCGCGTC+TGG 0.487266 3:+20269777 MsaT012177.1:CDS
CCATTCGCAATTCCAGCCTC+TGG 0.487747 3:+20268875 MsaT012177.1:CDS
ATCTGCGAGAAAACGGGGAC+CGG 0.499262 3:+20269541 MsaT012177.1:CDS
GATGAAGTTCAGAATCACTT+AGG 0.504785 3:+20268930 MsaT012177.1:CDS
GTCCTCTCAATCATGTCCTC+CGG 0.505376 3:-20269560 None:intergenic
CGTCTTCTTGCTTAACGGAC+CGG 0.507684 3:-20269105 None:intergenic
TGGCATTTAGGTTCGGGTGG+TGG 0.513608 3:-20270807 None:intergenic
GCAATGACTGCGCTATGATC+TGG 0.517604 3:-20269421 None:intergenic
CGTTCCGTATACAGATGGTC+AGG 0.524911 3:+20269472 MsaT012177.1:CDS
TCAGATAAGTTTCCTACCAC+TGG 0.525861 3:-20269509 None:intergenic
CTGTTGAGAGGAAGCAGAAG+AGG 0.527853 3:+20269582 MsaT012177.1:CDS
TACAGATGGTCAGGTGGCGT+TGG 0.529554 3:+20269481 MsaT012177.1:CDS
AACGCCATCCGATGGAGCAC+CGG 0.531708 3:-20269453 None:intergenic
GACTGCGCTATGATCTGGCT+CGG 0.540635 3:-20269416 None:intergenic
AACGAGGACACAGCGCAAGC+CGG 0.540740 3:+20269044 MsaT012177.1:CDS
AGTGATTCTGAACTTCATCA+AGG 0.543380 3:-20268926 None:intergenic
CTGCTGCGCGCTCAAGAGCA+AGG 0.547968 3:+20269624 MsaT012177.1:CDS
CGCAATTCCAGCCTCTGGCG+CGG 0.550321 3:+20268880 MsaT012177.1:CDS
GGCAAACCAATCAATTCGCA+TGG 0.550706 3:+20269019 MsaT012177.1:CDS
CCAGAGGCTGGAATTGCGAA+TGG 0.561078 3:-20268875 None:intergenic
TGCTGTGGATGCTGATAGTG+TGG 0.563676 3:-20269371 None:intergenic
TTAGGCATACACAACTGAGT+TGG 0.564109 3:+20269756 MsaT012177.1:intron
GCAGCCGGTGCTCCATCGGA+TGG 0.566094 3:+20269449 MsaT012177.1:CDS
GTATACGGAACGCCATCCGA+TGG 0.566185 3:-20269461 None:intergenic
CTGATGATACGCGACGAAGC+TGG 0.577434 3:-20270827 None:intergenic
TGAAAAGCTGAGGAAAGAGA+AGG 0.578797 3:+20269810 MsaT012177.1:CDS
GCATCCACAGCAAAGTGTGA+TGG 0.583686 3:+20269382 MsaT012177.1:CDS
AGCTGGCATTTAGGTTCGGG+TGG 0.592805 3:-20270810 None:intergenic
TACTGTATCCACGGACCATG+TGG 0.602459 3:-20269341 None:intergenic
ATCAATTCGCATGGAAAACG+AGG 0.609101 3:+20269028 MsaT012177.1:CDS
GTGATTCTGAACTTCATCAA+GGG 0.610620 3:-20268925 None:intergenic
TGCGAGAAAACGGGGACCGG+AGG 0.618027 3:+20269544 MsaT012177.1:CDS
GACCGGAGGACATGATTGAG+AGG 0.620098 3:+20269558 MsaT012177.1:CDS
GCGTTGGCTTCACCAGTGGT+AGG 0.620523 3:+20269497 MsaT012177.1:CDS
ACAACACTGACTTTAGGAGT+AGG 0.622952 3:-20269287 None:intergenic
GTCGCCATCACACTTTGCTG+TGG 0.628005 3:-20269386 None:intergenic
CATAGCGCAGTCATTGCACA+TGG 0.628851 3:+20269427 MsaT012177.1:CDS
AAGAGGAAAATGAAAAGCTG+AGG 0.635284 3:+20269800 MsaT012177.1:CDS
CAGAAATCTGCGAGAAAACG+GGG 0.637882 3:+20269536 MsaT012177.1:CDS
CCAACAAAGCAACGATCATG+AGG 0.639930 3:+20269151 MsaT012177.1:CDS
GGTTGTGCATACTGTATCCA+CGG 0.641304 3:-20269350 None:intergenic
TGATTGAGAGGACTGTTGAG+AGG 0.642725 3:+20269570 MsaT012177.1:CDS
GGTGGCGTTGGCTTCACCAG+TGG 0.643645 3:+20269493 MsaT012177.1:CDS
GATGGCGTTCCGTATACAGA+TGG 0.652018 3:+20269467 MsaT012177.1:CDS
TCCGTATACAGATGGTCAGG+TGG 0.656234 3:+20269475 MsaT012177.1:CDS
CGGTCCGTTAAGCAAGAAGA+CGG 0.656636 3:+20269106 MsaT012177.1:CDS
ACAAAGCAACGATCATGAGG+AGG 0.691016 3:+20269154 MsaT012177.1:CDS
GGACCATGTGGAGAAAACTG+TGG 0.769588 3:-20269329 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 20268837 20270860 20268837 ID=MsaG012177
Chr3 mRNA 20268837 20270860 20268837 ID=MsaT012177.1;Parent=MsaG012177
Chr3 exon 20268837 20269652 20268837 ID=MsaT012177.1.exon1;Parent=MsaT012177.1
Chr3 CDS 20268837 20269652 20268837 ID=cds.MsaT012177.1;Parent=MsaT012177.1
Chr3 exon 20269760 20269831 20269760 ID=MsaT012177.1.exon2;Parent=MsaT012177.1
Chr3 CDS 20269760 20269831 20269760 ID=cds.MsaT012177.1;Parent=MsaT012177.1
Chr3 exon 20270780 20270860 20270780 ID=MsaT012177.1.exon3;Parent=MsaT012177.1
Chr3 CDS 20270780 20270860 20270780 ID=cds.MsaT012177.1;Parent=MsaT012177.1
Gene Sequence

>MsaT012177.1

ATGGGATCTCAAGTTGCTGATGAAAGTAATAATGAAAACCATTCGCAATTCCAGCCTCTGGCGCGGCAAAATTCAATGTACAATCTTACCCTTGATGAAGTTCAGAATCACTTAGGTGACTTAGGAAAGCCACTAAGTAGTATGAACCTTGACGAGCTTCTGAAAAATGTATGGACTGTCGAGGCAAACCAATCAATTCGCATGGAAAACGAGGACACAGCGCAAGCCGGACAAGTTGTTTTTCAACGTCAACCTAATCTGTCGTTAACCGGTCCGTTAAGCAAGAAGACGGTTGATGAAGTTTGGAGAGATATCCAACAAAGCAACGATCATGAGGAGGTGAAGTCTCGAGAGATACAATCTACTTTGGGTGAGATGACATTAGAGGATTTTTTGGTTAAAGCAGGCGTTGTTTCGGCTGCATCTTCAAATAGAAAGAATACTAATGGTCCTACTCCTAAAGTCAGTGTTGTTGAATCGAATGTAGCGTTGCCACAGTTTTCTCCACATGGTCCGTGGATACAGTATGCACAACCACACTATCAGCATCCACAGCAAAGTGTGATGGCGACTTATGTTCCGAGCCAGATCATAGCGCAGTCATTGCACATGGCAGCCGGTGCTCCATCGGATGGCGTTCCGTATACAGATGGTCAGGTGGCGTTGGCTTCACCAGTGGTAGGAAACTTATCTGATACACAGAAATCTGCGAGAAAACGGGGACCGGAGGACATGATTGAGAGGACTGTTGAGAGGAAGCAGAAGAGGATGATTAAGAATCGAGAATCTGCTGCGCGCTCAAGAGCAAGGAAACAGGCATACACAACTGAGTTGGAGATCAAAGTCTCGCGTCTGGAAGAGGAAAATGAAAAGCTGAGGAAAGAGAAGGAGCTTGAGAACATGCTAGCTAATGCTCCACCACCCGAACCTAAATGCCAGCTTCGTCGCGTATCATCAGCTTCGTTTTGA
Protein sequence

>MsaT012177.1

MGSQVADESNNENHSQFQPLARQNSMYNLTLDEVQNHLGDLGKPLSSMNLDELLKNVWTVEANQSIRMENEDTAQAGQVVFQRQPNLSLTGPLSKKTVDEVWRDIQQSNDHEEVKSREIQSTLGEMTLEDFLVKAGVVSAASSNRKNTNGPTPKVSVVESNVALPQFSPHGPWIQYAQPHYQHPQQSVMATYVPSQIIAQSLHMAAGAPSDGVPYTDGQVALASPVVGNLSDTQKSARKRGPEDMIERTVERKQKRMIKNRESAARSRARKQAYTTELEIKVSRLEEENEKLRKEKELENMLANAPPPEPKCQLRRVSSASF*