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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1466470 | XP_013457561.1 | 97.727 | 44 | 1 | 0 | 1 | 44 | 88 | 131 | 5.17e-20 | 90.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1466470 | sp|Q944A9|NPS11_ARATH | 68.889 | 45 | 12 | 1 | 1 | 43 | 88 | 132 | 1.36e-12 | 63.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1466470 | A0A072UPG8 | 97.727 | 44 | 1 | 0 | 1 | 44 | 88 | 131 | 2.47e-20 | 90.5 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0498450 | Msa1466470 | 0.803690 | 3.090510e-49 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1466470 | MtrunA17_Chr4g0055321 | 97.727 | 44 | 1 | 0 | 1 | 44 | 88 | 131 | 4.76e-24 | 90.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1466470 | AT2G35190.1 | 68.889 | 45 | 12 | 1 | 1 | 43 | 88 | 132 | 1.39e-13 | 63.2 |
Find 9 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTTCTGTGTCGCCTTCAT+TGG | 0.242708 | tig0047256:+245 | Msa1466470:intergenic |
| TAAAGAAGTCAAAGCTTTAG+AGG | 0.333294 | tig0047256:-670 | Msa1466470:five_prime_UTR |
| TCTTCTGTGTCGCCTTCATT+GGG | 0.414766 | tig0047256:+246 | Msa1466470:intergenic |
| GAAGAAGCCAGCATACTTAC+CGG | 0.418150 | tig0047256:+206 | Msa1466470:intergenic |
| TAAGCGAATTGAACTCTTTG+AGG | 0.435458 | tig0047256:-271 | Msa1466470:CDS |
| GAAAATGTCTTGCTAGCTTC+CGG | 0.447441 | tig0047256:-225 | Msa1466470:CDS |
| CTAGCTTCCGGTAAGTATGC+TGG | 0.468974 | tig0047256:-213 | Msa1466470:CDS |
| AAGCGAATTGAACTCTTTGA+GGG | 0.501546 | tig0047256:-270 | Msa1466470:CDS |
| CTCTTTGAGGGACCCAATGA+AGG | 0.509954 | tig0047256:-258 | Msa1466470:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTTTTTCTCATTCAAAAATT+TGG | + | tig0047256:220-239 | Msa1466470:intergenic | 20.0% |
| !!! | ACTTCATGTTTTAAGTTTAT+TGG | - | tig0047256:315-334 | Msa1466470:intron | 20.0% |
| ! | ACATGAAGTAGCAAAATTAA+GGG | + | tig0047256:304-323 | Msa1466470:intergenic | 25.0% |
| ! | AACATGAAGTAGCAAAATTA+AGG | + | tig0047256:305-324 | Msa1466470:intergenic | 25.0% |
| ! | TAAAGAAGTCAAAGCTTTAG+AGG | - | tig0047256:173-192 | Msa1466470:CDS | 30.0% |
| CATGAAGTAGCAAAATTAAG+GGG | + | tig0047256:303-322 | Msa1466470:intergenic | 30.0% | |
| GAACAAAATGAGAGATTCTA+AGG | + | tig0047256:464-483 | Msa1466470:intergenic | 30.0% | |
| GAATGAGAAAAAGCAGTCAA+TGG | - | tig0047256:227-246 | Msa1466470:CDS | 35.0% | |
| ! | AATGGTAAGATGTTTAGCTC+TGG | - | tig0047256:245-264 | Msa1466470:CDS | 35.0% |
| ! | GAGATTCTAAGGAAGCAAAA+TGG | + | tig0047256:453-472 | Msa1466470:intergenic | 35.0% |
| ! | TCATTTTGTTCTTGCTTGAG+TGG | - | tig0047256:473-492 | Msa1466470:intron | 35.0% |
| ! | CTTACTTGTTGATGCTATCA+AGG | + | tig0047256:507-526 | Msa1466470:intergenic | 35.0% |
| TAAGCGAATTGAACTCTTTG+AGG | - | tig0047256:572-591 | Msa1466470:intron | 35.0% | |
| AAGCGAATTGAACTCTTTGA+GGG | - | tig0047256:573-592 | Msa1466470:intron | 35.0% | |
| ! | GAAAATGTCTTGCTAGCTTC+CGG | - | tig0047256:618-637 | Msa1466470:exon | 40.0% |
| TCTTCTGTGTCGCCTTCATT+GGG | + | tig0047256:600-619 | Msa1466470:intergenic | 45.0% | |
| TTCTTCTGTGTCGCCTTCAT+TGG | + | tig0047256:601-620 | Msa1466470:intergenic | 45.0% | |
| GAAGAAGCCAGCATACTTAC+CGG | + | tig0047256:640-659 | Msa1466470:intergenic | 45.0% | |
| ! | CTCTTTGAGGGACCCAATGA+AGG | - | tig0047256:585-604 | Msa1466470:intron | 50.0% |
| CTAGCTTCCGGTAAGTATGC+TGG | - | tig0047256:630-649 | Msa1466470:five_prime_UTR | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0047256 | gene | 158 | 707 | 158 | ID=Msa1466470;Name=Msa1466470 |
| tig0047256 | mRNA | 158 | 707 | 158 | ID=Msa1466470-mRNA-1;Parent=Msa1466470;Name=Msa1466470-mRNA-1;_AED=0.00;_eAED=0.00;_QI=88|1|1|1|1|1|3|0|66 |
| tig0047256 | exon | 158 | 314 | 158 | ID=Msa1466470-mRNA-1:exon:25079;Parent=Msa1466470-mRNA-1 |
| tig0047256 | exon | 429 | 466 | 429 | ID=Msa1466470-mRNA-1:exon:25078;Parent=Msa1466470-mRNA-1 |
| tig0047256 | exon | 617 | 707 | 617 | ID=Msa1466470-mRNA-1:exon:25077;Parent=Msa1466470-mRNA-1 |
| tig0047256 | five_prime_UTR | 620 | 707 | 620 | ID=Msa1466470-mRNA-1:five_prime_utr;Parent=Msa1466470-mRNA-1 |
| tig0047256 | CDS | 617 | 619 | 617 | ID=Msa1466470-mRNA-1:cds;Parent=Msa1466470-mRNA-1 |
| tig0047256 | CDS | 429 | 466 | 429 | ID=Msa1466470-mRNA-1:cds;Parent=Msa1466470-mRNA-1 |
| tig0047256 | CDS | 158 | 314 | 158 | ID=Msa1466470-mRNA-1:cds;Parent=Msa1466470-mRNA-1 |
| Gene Sequence |
| Protein sequence |
