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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0853240 | XP_003615144.1 | 94.937 | 316 | 16 | 0 | 1 | 316 | 1 | 316 | 0.0 | 620 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0853240 | sp|O82161|PHI1_TOBAC | 74.359 | 312 | 71 | 4 | 9 | 316 | 7 | 313 | 2.04e-165 | 465 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0853240 | Msa0853250 | 0.886824 | 2.442316e-72 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0853240 | MtrunA17_Chr5g0426441 | 94.855 | 311 | 16 | 0 | 6 | 316 | 648 | 958 | 0.0 | 610 |
| Msa0853240 | MtrunA17_Chr5g0426441 | 92.405 | 316 | 23 | 1 | 1 | 316 | 25 | 339 | 0.0 | 597 |
| Msa0853240 | MtrunA17_Chr5g0426441 | 93.248 | 311 | 20 | 1 | 6 | 316 | 339 | 648 | 0.0 | 593 |
| Msa0853240 | MtrunA17_Chr3g0116001 | 79.125 | 297 | 49 | 3 | 20 | 316 | 21 | 304 | 3.00e-173 | 482 |
| Msa0853240 | MtrunA17_Chr3g0116011 | 78.788 | 297 | 50 | 4 | 20 | 316 | 21 | 304 | 5.84e-172 | 478 |
| Msa0853240 | MtrunA17_Chr3g0115951 | 71.704 | 311 | 84 | 3 | 9 | 316 | 8 | 317 | 3.78e-156 | 439 |
| Msa0853240 | MtrunA17_Chr4g0050321 | 61.053 | 285 | 97 | 3 | 32 | 316 | 30 | 300 | 3.38e-122 | 352 |
| Msa0853240 | MtrunA17_Chr2g0279311 | 53.145 | 318 | 132 | 7 | 1 | 316 | 2 | 304 | 4.86e-118 | 342 |
| Msa0853240 | MtrunA17_Chr4g0018171 | 36.806 | 288 | 160 | 8 | 25 | 301 | 53 | 329 | 5.85e-48 | 164 |
| Msa0853240 | MtrunA17_Chr1g0188071 | 34.528 | 307 | 180 | 7 | 6 | 301 | 33 | 329 | 1.54e-46 | 160 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0853240 | AT4G08950.1 | 71.477 | 298 | 77 | 5 | 24 | 316 | 20 | 314 | 1.57e-148 | 420 |
| Msa0853240 | AT1G35140.1 | 64.762 | 315 | 104 | 3 | 1 | 315 | 1 | 308 | 1.79e-144 | 409 |
| Msa0853240 | AT5G64260.1 | 56.818 | 308 | 123 | 4 | 10 | 316 | 7 | 305 | 1.75e-120 | 348 |
| Msa0853240 | AT5G09440.1 | 55.150 | 301 | 101 | 7 | 18 | 316 | 10 | 278 | 1.02e-101 | 300 |
| Msa0853240 | AT5G51550.1 | 36.066 | 305 | 173 | 8 | 20 | 313 | 38 | 331 | 1.66e-49 | 168 |
| Msa0853240 | AT3G02970.1 | 31.667 | 300 | 167 | 8 | 47 | 314 | 37 | 330 | 1.84e-45 | 157 |
| Msa0853240 | AT2G35150.1 | 33.846 | 325 | 188 | 11 | 6 | 312 | 1 | 316 | 1.88e-42 | 149 |
| Msa0853240 | AT2G17230.1 | 31.908 | 304 | 185 | 9 | 22 | 313 | 64 | 357 | 5.69e-41 | 146 |
Find 70 sgRNAs with CRISPR-Local
Find 174 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGTCCCCAACATATCC+AGG | 0.476468 | 5_4:+44980818 | None:intergenic |
| AAATCTCAGTCAACCTCATT+TGG | 0.388936 | 5_4:-44981492 | Msa0853240:CDS |
| AAATTCGCATACATTTGGGT+TGG | 0.526466 | 5_4:-44981088 | Msa0853240:CDS |
| AACATAAATTCGCATACATT+TGG | 0.287196 | 5_4:-44981093 | Msa0853240:CDS |
| AACCATCAGTTGCCACGTGG+TGG | 0.610757 | 5_4:-44981381 | Msa0853240:CDS |
| AACCTCAGTTTGTTCTACGT+TGG | 0.567385 | 5_4:-44980711 | Msa0853240:CDS |
| AATAACGATGTGGGTCTTGA+CGG | 0.470820 | 5_4:-44980977 | Msa0853240:CDS |
| AATCAGTTATGATAGCTCTT+TGG | 0.295676 | 5_4:+44981449 | None:intergenic |
| AATGTGCTGGTCAATGCGCA+TGG | 0.679785 | 5_4:-44981051 | Msa0853240:CDS |
| AATTCAGAGACACAATGTGC+TGG | 0.594460 | 5_4:-44981064 | Msa0853240:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATCAGTTATGATAGCTCTTT+GGG | + | chr5_4:44980893-44980912 | None:intergenic | 30.0% | |
| AATCAGTTATGATAGCTCTT+TGG | + | chr5_4:44980894-44980913 | None:intergenic | 30.0% | |
| TGAAAATAACCATCACCAAA+AGG | + | chr5_4:44981435-44981454 | None:intergenic | 30.0% | |
| TACAATGCAAATGGTGATAA+TGG | - | chr5_4:44981570-44981589 | Msa0853240:CDS | 30.0% | |
| ATCAGTTATGATAGCTCTTT+GGG | + | chr5_4:44980893-44980912 | None:intergenic | 30.0% | |
| AATCAGTTATGATAGCTCTT+TGG | + | chr5_4:44980894-44980913 | None:intergenic | 30.0% | |
| TGAAAATAACCATCACCAAA+AGG | + | chr5_4:44981435-44981454 | None:intergenic | 30.0% | |
| TACAATGCAAATGGTGATAA+TGG | - | chr5_4:44981570-44981589 | Msa0853240:CDS | 30.0% | |
| AAATCTCAGTCAACCTCATT+TGG | - | chr5_4:44980848-44980867 | Msa0853240:CDS | 35.0% | |
| TTGATGCGAGTTTAAGGATT+TGG | + | chr5_4:44981104-44981123 | None:intergenic | 35.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 44980706 | 44981656 | 44980706 | ID=Msa0853240;Name=Msa0853240 |
| chr5_4 | mRNA | 44980706 | 44981656 | 44980706 | ID=Msa0853240-mRNA-1;Parent=Msa0853240;Name=Msa0853240-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|-1|0|1|-1|1|1|0|316 |
| chr5_4 | exon | 44980706 | 44981656 | 44980706 | ID=Msa0853240-mRNA-1:exon:14205;Parent=Msa0853240-mRNA-1 |
| chr5_4 | CDS | 44980706 | 44981656 | 44980706 | ID=Msa0853240-mRNA-1:cds;Parent=Msa0853240-mRNA-1 |
| Gene Sequence |
>Msa0853240 ATGGCATCTTTTAAGTTAAGTGTAATCTTCACTCTTTTTCTCACAATTTCACTGCTTCATTTAATCTCAGCTGCTAGAAAACTCACCGAATCGGACCAACAACTTAAATTTCAATACCACAAAGGCCCTCTTCTCACTGGCAAAATCTCAGTCAACCTCATTTGGTATGGAAAATTCAAACCATCCCAAAGAGCTATCATAACTGATTTCATAACCTCCCTCTCTTCTCCTAAACGAGGAACAACCACGTCACAACCATCAGTTGCCACGTGGTGGAAATCAACTGAAAAATATTACCAGCTCACCAACAATAAAAAGTCAGCTAAACTAGCTCTCTCACTAGGTGCTCAAATTCTCGATGAGGATTACTCTTTAGGAAAATCTCTCACAACTAACCAAATCCTTAAACTCGCATCAAAAGGACAACAGAAAAACGCCATCAACGTTGTTCTAACAGCTGCTGATGTGTTAGTTGACGGTTTTTGTTCAAGTAGGTGTGGAACCCACGGTTCTTCTTATGGTGCACGCGTGAATGGAAAGCAACATAAATTCGCATACATTTGGGTTGGAAATTCAGAGACACAATGTGCTGGTCAATGCGCATGGCCATTTCACCAACCAATTTATGGTCCACAAAGTGCACCTTTGGTTGCACCAAATAACGATGTGGGTCTTGACGGAATGGTTATAAATGTTGCTAGTCTTTTAGCTGGGACTGTAACCAATCCTTTTGGTGATGGTTATTTTCAAGGACCAAAAGAAGCTCCTTTGGAAGCTGCTTCGGCTTGTACTGGTGTTTATGCTAAAGGAGCTTATCCTGGATATGTTGGGGACCTTTTGGTGGACAAAACAAGTGGTGCTAGCTACAATGCAAATGGTGATAATGGAAGGAAGTATTTGTTGCCTGCGATTGTTGATCCAAAAACCTCAGTTTGTTCTACGTTGGTATGA |
| Protein sequence |
>Msa0853240 MASFKLSVIFTLFLTISLLHLISAARKLTESDQQLKFQYHKGPLLTGKISVNLIWYGKFKPSQRAIITDFITSLSSPKRGTTTSQPSVATWWKSTEKYYQLTNNKKSAKLALSLGAQILDEDYSLGKSLTTNQILKLASKGQQKNAINVVLTAADVLVDGFCSSRCGTHGSSYGARVNGKQHKFAYIWVGNSETQCAGQCAWPFHQPIYGPQSAPLVAPNNDVGLDGMVINVASLLAGTVTNPFGDGYFQGPKEAPLEAASACTGVYAKGAYPGYVGDLLVDKTSGASYNANGDNGRKYLLPAIVDPKTSVCSTLV* |
