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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1428450 | XP_039686362.1 | 92.958 | 71 | 5 | 0 | 1 | 71 | 1 | 71 | 4.89e-37 | 139 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1428450 | A0A2Z6MT37 | 69.014 | 71 | 22 | 0 | 1 | 71 | 1 | 71 | 1.19e-24 | 106 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1428450 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1428450 | MtrunA17_Chr5g0401121 | 46.154 | 65 | 35 | 0 | 7 | 71 | 56 | 120 | 2.77e-15 | 66.6 |
| Msa1428450 | MtrunA17_Chr6g0458391 | 42.029 | 69 | 40 | 0 | 3 | 71 | 221 | 289 | 2.35e-14 | 66.6 |
| Msa1428450 | MtrunA17_Chr3g0082121 | 40.541 | 74 | 43 | 1 | 7 | 80 | 43 | 115 | 2.52e-13 | 63.5 |
| Msa1428450 | MtrunA17_Chr7g0258861 | 43.750 | 64 | 35 | 1 | 6 | 69 | 9 | 71 | 3.53e-13 | 62.8 |
| Msa1428450 | MtrunA17_Chr1g0203721 | 37.681 | 69 | 43 | 0 | 3 | 71 | 59 | 127 | 9.59e-12 | 58.9 |
| Msa1428450 | MtrunA17_Chr2g0324011 | 42.188 | 64 | 36 | 1 | 6 | 69 | 9 | 71 | 2.13e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAGATACGACTTGGCAATTT+TGG | 0.122360 | tig0026358:+9312 | Msa1428450:CDS |
| TTAAACGGAATGAAATTTAC+TGG | 0.313399 | tig0026358:-9507 | Msa1428450:intergenic |
| TGCGAAACCGAGTGTTGGTT+TGG | 0.367140 | tig0026358:+9277 | Msa1428450:CDS |
| TATGGTAAGAAATGTGGTTT+TGG | 0.376185 | tig0026358:+9341 | Msa1428450:CDS |
| ACATACTTCCATCTCTTAAA+CGG | 0.421200 | tig0026358:-9522 | Msa1428450:intergenic |
| GCCTAGGGCTGATACAGATC+AGG | 0.435601 | tig0026358:+9480 | Msa1428450:CDS |
| TTTCAACCTACTGCCCTCCT+TGG | 0.458502 | tig0026358:-9432 | Msa1428450:intergenic |
| CGGCAGATTTGTTTGTTCCA+AGG | 0.478536 | tig0026358:+9415 | Msa1428450:CDS |
| GTAGATGACTTGATTACATC+CGG | 0.515405 | tig0026358:+9395 | Msa1428450:CDS |
| TGAAAGACAAAAGATCCTCT+TGG | 0.526677 | tig0026358:+9450 | Msa1428450:CDS |
| TTTGTTCCAAGGAGGGCAGT+AGG | 0.531121 | tig0026358:+9426 | Msa1428450:CDS |
| CTTGGAACAAACAAATCTGC+CGG | 0.541110 | tig0026358:-9414 | Msa1428450:intergenic |
| AGATTTGTTTGTTCCAAGGA+GGG | 0.566275 | tig0026358:+9419 | Msa1428450:CDS |
| CCCTGATCTGTATCAGCCCT+AGG | 0.568201 | tig0026358:-9481 | Msa1428450:intergenic |
| GTTGAATATGGTAAGAAATG+TGG | 0.571393 | tig0026358:+9335 | Msa1428450:CDS |
| CAGATTTGTTTGTTCCAAGG+AGG | 0.577739 | tig0026358:+9418 | Msa1428450:CDS |
| TTGATAGCGTAGATACGACT+TGG | 0.578993 | tig0026358:+9303 | Msa1428450:CDS |
| CTTAATGCGAAACCGAGTGT+TGG | 0.607268 | tig0026358:+9272 | Msa1428450:CDS |
| TCAAATTCCAAACCAACACT+CGG | 0.627339 | tig0026358:-9284 | Msa1428450:intergenic |
| CCTAGGGCTGATACAGATCA+GGG | 0.657084 | tig0026358:+9481 | Msa1428450:CDS |
| TGATTACTTGAACAAACGAA+AGG | 0.666107 | tig0026358:+9373 | Msa1428450:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TTAAACGGAATGAAATTTAC+TGG | - | tig0026358:9510-9529 | Msa1428450:intergenic | 25.0% |
| GTTGAATATGGTAAGAAATG+TGG | + | tig0026358:9335-9354 | Msa1428450:CDS | 30.0% | |
| ! | TATGGTAAGAAATGTGGTTT+TGG | + | tig0026358:9341-9360 | Msa1428450:CDS | 30.0% |
| TGATTACTTGAACAAACGAA+AGG | + | tig0026358:9373-9392 | Msa1428450:CDS | 30.0% | |
| TCAAATTCCAAACCAACACT+CGG | - | tig0026358:9287-9306 | Msa1428450:intergenic | 35.0% | |
| !! | TAGATACGACTTGGCAATTT+TGG | + | tig0026358:9312-9331 | Msa1428450:CDS | 35.0% |
| !! | AGATACGACTTGGCAATTTT+GGG | + | tig0026358:9313-9332 | Msa1428450:CDS | 35.0% |
| !!! | TGGCAATTTTGGGTTGAATA+TGG | + | tig0026358:9323-9342 | Msa1428450:CDS | 35.0% |
| GTAGATGACTTGATTACATC+CGG | + | tig0026358:9395-9414 | Msa1428450:CDS | 35.0% | |
| ! | AGATTTGTTTGTTCCAAGGA+GGG | + | tig0026358:9419-9438 | Msa1428450:CDS | 35.0% |
| TGAAAGACAAAAGATCCTCT+TGG | + | tig0026358:9450-9469 | Msa1428450:CDS | 35.0% | |
| !! | TTGATAGCGTAGATACGACT+TGG | + | tig0026358:9303-9322 | Msa1428450:CDS | 40.0% |
| CTTGGAACAAACAAATCTGC+CGG | - | tig0026358:9417-9436 | Msa1428450:intergenic | 40.0% | |
| ! | CAGATTTGTTTGTTCCAAGG+AGG | + | tig0026358:9418-9437 | Msa1428450:CDS | 40.0% |
| TCCTCTTGGTTAAAAAGCCT+AGG | + | tig0026358:9464-9483 | Msa1428450:CDS | 40.0% | |
| CCTCTTGGTTAAAAAGCCTA+GGG | + | tig0026358:9465-9484 | Msa1428450:CDS | 40.0% | |
| CTTAATGCGAAACCGAGTGT+TGG | + | tig0026358:9272-9291 | Msa1428450:CDS | 45.0% | |
| ! | CGGCAGATTTGTTTGTTCCA+AGG | + | tig0026358:9415-9434 | Msa1428450:CDS | 45.0% |
| ! | CCCTAGGCTTTTTAACCAAG+AGG | - | tig0026358:9468-9487 | Msa1428450:intergenic | 45.0% |
| !! | TGCGAAACCGAGTGTTGGTT+TGG | + | tig0026358:9277-9296 | Msa1428450:CDS | 50.0% |
| TTTGTTCCAAGGAGGGCAGT+AGG | + | tig0026358:9426-9445 | Msa1428450:CDS | 50.0% | |
| TTTCAACCTACTGCCCTCCT+TGG | - | tig0026358:9435-9454 | Msa1428450:intergenic | 50.0% | |
| CCTAGGGCTGATACAGATCA+GGG | + | tig0026358:9481-9500 | Msa1428450:CDS | 50.0% | |
| GCCTAGGGCTGATACAGATC+AGG | + | tig0026358:9480-9499 | Msa1428450:CDS | 55.0% | |
| CCCTGATCTGTATCAGCCCT+AGG | - | tig0026358:9484-9503 | Msa1428450:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0026358 | gene | 9266 | 9529 | 9266 | ID=Msa1428450;Name=Msa1428450 |
| tig0026358 | mRNA | 9266 | 9529 | 9266 | ID=Msa1428450-mRNA-1;Parent=Msa1428450;Name=Msa1428450-mRNA-1;_AED=0.23;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|87 |
| tig0026358 | exon | 9266 | 9529 | 9266 | ID=Msa1428450-mRNA-1:exon:5982;Parent=Msa1428450-mRNA-1 |
| tig0026358 | CDS | 9266 | 9529 | 9266 | ID=Msa1428450-mRNA-1:cds;Parent=Msa1428450-mRNA-1 |
| Gene Sequence |
| Protein sequence |
