Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0536300 | XP_003604971.2 | 97.541 | 366 | 7 | 1 | 1 | 366 | 1 | 364 | 0.0 | 725 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0536300 | sp|Q9M2U1|DOF36_ARATH | 43.243 | 296 | 109 | 14 | 1 | 278 | 1 | 255 | 4.74e-53 | 181 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0536280 | Msa0536300 | 0.956028 | 7.713442e-114 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0536300 | MtrunA17_Chr4g0010151 | 97.541 | 366 | 7 | 1 | 1 | 366 | 1 | 364 | 0.0 | 725 |
| Msa0536300 | MtrunA17_Chr7g0237921 | 49.354 | 387 | 126 | 14 | 1 | 362 | 1 | 342 | 5.15e-88 | 269 |
| Msa0536300 | MtrunA17_Chr4g0031411 | 44.509 | 346 | 140 | 14 | 1 | 325 | 1 | 315 | 3.86e-67 | 215 |
| Msa0536300 | MtrunA17_Chr2g0328021 | 39.557 | 316 | 117 | 17 | 1 | 310 | 1 | 248 | 5.29e-48 | 164 |
| Msa0536300 | MtrunA17_Chr7g0223311 | 36.896 | 393 | 183 | 16 | 1 | 356 | 1 | 365 | 1.86e-47 | 165 |
| Msa0536300 | MtrunA17_Chr3g0127201 | 69.737 | 76 | 19 | 1 | 63 | 138 | 12 | 83 | 3.61e-32 | 122 |
| Msa0536300 | MtrunA17_Chr2g0326001 | 80.328 | 61 | 12 | 0 | 76 | 136 | 34 | 94 | 3.91e-31 | 119 |
| Msa0536300 | MtrunA17_Chr8g0346551 | 45.324 | 139 | 65 | 3 | 69 | 205 | 11 | 140 | 5.40e-31 | 118 |
| Msa0536300 | MtrunA17_Chr8g0374251 | 51.351 | 111 | 49 | 2 | 82 | 188 | 68 | 177 | 8.06e-30 | 117 |
| Msa0536300 | MtrunA17_Chr5g0411951 | 81.818 | 55 | 10 | 0 | 78 | 132 | 39 | 93 | 2.95e-29 | 115 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0536300 | AT3G55370.2 | 38.071 | 394 | 162 | 18 | 1 | 353 | 1 | 353 | 3.25e-54 | 182 |
| Msa0536300 | AT3G55370.1 | 43.243 | 296 | 109 | 14 | 1 | 278 | 1 | 255 | 4.82e-54 | 181 |
| Msa0536300 | AT2G37590.1 | 41.566 | 332 | 146 | 11 | 1 | 311 | 1 | 305 | 8.24e-50 | 170 |
| Msa0536300 | AT5G02460.1 | 39.257 | 377 | 142 | 14 | 1 | 315 | 1 | 352 | 2.52e-47 | 166 |
| Msa0536300 | AT3G55370.3 | 46.531 | 245 | 87 | 13 | 45 | 278 | 89 | 300 | 4.63e-47 | 164 |
| Msa0536300 | AT2G28810.1 | 34.409 | 372 | 176 | 15 | 1 | 345 | 1 | 331 | 6.63e-38 | 139 |
| Msa0536300 | AT1G07640.3 | 50.694 | 144 | 65 | 3 | 5 | 142 | 2 | 145 | 5.86e-37 | 136 |
| Msa0536300 | AT5G60200.1 | 57.407 | 108 | 45 | 1 | 78 | 184 | 51 | 158 | 1.76e-36 | 133 |
| Msa0536300 | AT1G07640.2 | 53.731 | 134 | 56 | 3 | 15 | 142 | 4 | 137 | 2.18e-36 | 135 |
| Msa0536300 | AT1G07640.1 | 70.886 | 79 | 23 | 0 | 64 | 142 | 3 | 81 | 4.35e-36 | 132 |
Find 123 sgRNAs with CRISPR-Local
Find 316 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATAAAATATAATATCCCT+AGG | 0.492696 | 4_1:-13219905 | None:intergenic |
| AAATGGAAGATAGTATCAAT+AGG | 0.414206 | 4_1:+13219583 | Msa0536300:CDS |
| AAATTCAAAGAGAGAAAACA+TGG | 0.627320 | 4_1:+13218396 | Msa0536300:exon |
| AACCCTAATGATTTCGTCGT+CGG | 0.557922 | 4_1:+13219258 | Msa0536300:CDS |
| AACCTCAATGATGACATTTG+AGG | 0.576269 | 4_1:-13219207 | None:intergenic |
| AACTAGCACTCCCCGTTTGG+CGG | 0.478302 | 4_1:-13219122 | None:intergenic |
| AATAAAATATAATATCCCTA+GGG | 0.631283 | 4_1:-13219904 | None:intergenic |
| AATCATGAAATGATAACTAG+TGG | 0.606438 | 4_1:+13219498 | Msa0536300:CDS |
| AATGATTTCGTCGTCGGAGG+AGG | 0.466998 | 4_1:+13219264 | Msa0536300:CDS |
| AATGGAAGATAGTATCAATA+GGG | 0.409067 | 4_1:+13219584 | Msa0536300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GCAAGAAAGAAATTAACAAG+TGG | - | chr4_1:13218268-13218287 | None:intergenic | 30.0% | |
| TCTTCACTATTATCACCTAA+AGG | + | chr4_1:13218368-13218387 | Msa0536300:five_prime_UTR | 30.0% | |
| AGCAAGGTTTCCATTTAATT+TGG | + | chr4_1:13218484-13218503 | Msa0536300:intron | 30.0% | |
| ATTGAGAATAAGGGAAGAAA+GGG | - | chr4_1:13218641-13218660 | None:intergenic | 30.0% | |
| AATTGAGAATAAGGGAAGAA+AGG | - | chr4_1:13218642-13218661 | None:intergenic | 30.0% | |
| ATGGAAGATAGTATCAATAG+GGG | + | chr4_1:13219585-13219604 | Msa0536300:CDS | 30.0% | |
| GGAAACAATAACAGTAATCA+AGG | + | chr4_1:13219627-13219646 | Msa0536300:CDS | 30.0% | |
| TTAGGTTTCTTTGTATGAGA+AGG | + | chr4_1:13219981-13220000 | Msa0536300:three_prime_UTR | 30.0% | |
| TAGTAACATTGTGAGTTCAA+AGG | + | chr4_1:13220023-13220042 | Msa0536300:three_prime_UTR | 30.0% | |
| GCAAGAAAGAAATTAACAAG+TGG | - | chr4_1:13218268-13218287 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 13218231 | 13220093 | 13218231 | ID=Msa0536300;Name=Msa0536300 |
| chr4_1 | mRNA | 13218231 | 13220093 | 13218231 | ID=Msa0536300-mRNA-1;Parent=Msa0536300;Name=Msa0536300-mRNA-1;_AED=0.00;_eAED=0.00;_QI=184|1|1|1|1|1|2|332|366 |
| chr4_1 | exon | 13218231 | 13218471 | 13218231 | ID=Msa0536300-mRNA-1:exon:4171;Parent=Msa0536300-mRNA-1 |
| chr4_1 | exon | 13218718 | 13220093 | 13218718 | ID=Msa0536300-mRNA-1:exon:4172;Parent=Msa0536300-mRNA-1 |
| chr4_1 | five_prime_UTR | 13218231 | 13218414 | 13218231 | ID=Msa0536300-mRNA-1:five_prime_utr;Parent=Msa0536300-mRNA-1 |
| chr4_1 | CDS | 13218415 | 13218471 | 13218415 | ID=Msa0536300-mRNA-1:cds;Parent=Msa0536300-mRNA-1 |
| chr4_1 | CDS | 13218718 | 13219761 | 13218718 | ID=Msa0536300-mRNA-1:cds;Parent=Msa0536300-mRNA-1 |
| chr4_1 | three_prime_UTR | 13219762 | 13220093 | 13219762 | ID=Msa0536300-mRNA-1:three_prime_utr;Parent=Msa0536300-mRNA-1 |
| Gene Sequence |
>Msa0536300 ATGGTTTTTACTTCCATACCAGCAGCTTATCTTGATGCAGCCAACTGGCAGCAACAGCAACAGAATCATCATCAGCAACCAGGAAACGGCGGCTCCGTCTCTCAACAACTGCTTCAGACACCACCACCACCACCACCACAGTCACAGTCTCAACCTCATGGAGGAGGATCCACCGGCTCAATTAGGCCAGGATCGATGTCCGATAGGGCAAGGATGGCGAACATGCCTATGCCGGAGGCAGCACTGAAATGTCCACGTTGTGAATCAACCAACACAAAATTTTGTTACTTCAACAACTACAGTCTCTCTCAGCCCAGACACTTCTGCAAGACTTGCAGAAGGTACTGGACAAGAGGCGGCGCTCTAAGGAATGTCCCGGTTGGTGGAGGCTTCCGGAGAAACAAGAGATCAAGCAAAAGTAGCAACAATGGAAACTCAACAAAGTCTCCGGCTAGCTCTGACCGCCAAACGGGGAGTGCTAGTTCAACAAACTCAATCACCTCCAATAACAATATCCACTCTTCCGCCGATATATTAGGCCTTACACCTCAAATGTCATCATTGAGGTTCATGACACCTTTACATCATAACTTCAGTAACCCTAATGATTTCGTCGTCGGAGGAGGAGGAGATTTAGGGTTAAACTATGGTTTTAGTTACATGGGAGGAGTAGGTGATTTGGGAAGTGCTTTAGGAGGTAATTCAATTTTATCTTCAAGTGGTTTGGAGCAATGGAGGATGCCAATGTCAATGACTCATCAACAGCATCAATTTCCTTTTTTGGCTAATTTGGAGGGTTCAAATAGTAATTTGTACCCTTTTGAAGGAAATGTTCAAAATCATGAAATGATAACTAGTGGTGGATATGTGAGGCCAAAAGTGATTTCAACTTCTGGAATTATGACTCAACTTGCTTCTGTGAAAATGGAAGATAGTATCAATAGGGGCTTTTTGGGAATTAGCACAGGAAACAATAACAGTAATCAAGGAAGTGAACAATTTTGGAATAGTGCTGTTGTTACTGGTAATTCTGCAGCTAATTGGACTGATCATGTTTCTGGTTTTAGCTCTTCTTCTAATACTACTAGTAACCAGATGTAG |
| Protein sequence |
>Msa0536300 MVFTSIPAAYLDAANWQQQQQNHHQQPGNGGSVSQQLLQTPPPPPPQSQSQPHGGGSTGSIRPGSMSDRARMANMPMPEAALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGGALRNVPVGGGFRRNKRSSKSSNNGNSTKSPASSDRQTGSASSTNSITSNNNIHSSADILGLTPQMSSLRFMTPLHHNFSNPNDFVVGGGGDLGLNYGFSYMGGVGDLGSALGGNSILSSSGLEQWRMPMSMTHQQHQFPFLANLEGSNSNLYPFEGNVQNHEMITSGGYVRPKVISTSGIMTQLASVKMEDSINRGFLGISTGNNNSNQGSEQFWNSAVVTGNSAANWTDHVSGFSSSSNTTSNQM* |
