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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0783360 | A0A072UB45 | 96.104 | 77 | 3 | 0 | 20 | 96 | 1 | 77 | 1.54e-45 | 158 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0783360 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0783360 | Msa1154160 | 0.804654 | 1.947489e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0783360 | MtrunA17_Chr8g0363841 | 81.579 | 76 | 14 | 0 | 20 | 95 | 1 | 76 | 1.27e-39 | 138 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 11 sgRNAs with CRISPR-Local
Find 16 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTATTTGTAGAATAAATA+TGG | 0.264294 | 5_2:-67273123 | Msa0783360:CDS |
| CCATCTTGAAGCCATGTTCT+TGG | 0.280191 | 5_2:+67273006 | None:intergenic |
| ATTGTTCTTAAACCCTTGTT+TGG | 0.337062 | 5_2:+67272905 | None:intergenic |
| GTTCAATTAAATGATGACTT+TGG | 0.445929 | 5_2:-67273189 | None:intergenic |
| CAAGAACATGGCTTCAAGAT+GGG | 0.500638 | 5_2:-67273005 | Msa0783360:CDS |
| CCAAGAACATGGCTTCAAGA+TGG | 0.507821 | 5_2:-67273006 | Msa0783360:CDS |
| GATTATTATTGTTCCAAACA+AGG | 0.530481 | 5_2:-67272918 | Msa0783360:CDS |
| ATTATTATTGTTCCAAACAA+GGG | 0.540953 | 5_2:-67272917 | Msa0783360:CDS |
| TGGTCAAGTTGTGCATAGCA+AGG | 0.581013 | 5_2:-67273048 | Msa0783360:CDS |
| TATTTGTAGAATAAATATGG+AGG | 0.612492 | 5_2:-67273120 | Msa0783360:CDS |
| TATAACTTATACCAAGAACA+TGG | 0.669118 | 5_2:-67273017 | Msa0783360:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTATTTGTAGAATAAATA+TGG | - | chr5_2:67272946-67272965 | Msa0783360:CDS | 10.0% |
| !! | TATTTGTAGAATAAATATGG+AGG | - | chr5_2:67272949-67272968 | Msa0783360:CDS | 20.0% |
| !! | ATTATTATTGTTCCAAACAA+GGG | - | chr5_2:67273152-67273171 | Msa0783360:CDS | 20.0% |
| ! | TATAACTTATACCAAGAACA+TGG | - | chr5_2:67273052-67273071 | Msa0783360:CDS | 25.0% |
| ! | GATTATTATTGTTCCAAACA+AGG | - | chr5_2:67273151-67273170 | Msa0783360:CDS | 25.0% |
| TGACCAAGAAAAATATCTCT+GGG | + | chr5_2:67273007-67273026 | None:intergenic | 30.0% | |
| TTGACCAAGAAAAATATCTC+TGG | + | chr5_2:67273008-67273027 | None:intergenic | 30.0% | |
| !! | ATGGGTTTTAGTGTAAGAAA+AGG | - | chr5_2:67273082-67273101 | Msa0783360:CDS | 30.0% |
| !! | TGGGTTTTAGTGTAAGAAAA+GGG | - | chr5_2:67273083-67273102 | Msa0783360:CDS | 30.0% |
| ! | TTTTAGTGTAAGAAAAGGGA+AGG | - | chr5_2:67273087-67273106 | Msa0783360:CDS | 30.0% |
| ATTGTTCTTAAACCCTTGTT+TGG | + | chr5_2:67273167-67273186 | None:intergenic | 30.0% | |
| ! | AAGCCCAGAGATATTTTTCT+TGG | - | chr5_2:67273001-67273020 | Msa0783360:CDS | 35.0% |
| CAAGAACATGGCTTCAAGAT+GGG | - | chr5_2:67273064-67273083 | Msa0783360:CDS | 40.0% | |
| ! | TGGTCAAGTTGTGCATAGCA+AGG | - | chr5_2:67273021-67273040 | Msa0783360:CDS | 45.0% |
| CCATCTTGAAGCCATGTTCT+TGG | + | chr5_2:67273066-67273085 | None:intergenic | 45.0% | |
| CCAAGAACATGGCTTCAAGA+TGG | - | chr5_2:67273063-67273082 | Msa0783360:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 67272893 | 67273198 | 67272893 | ID=Msa0783360;Name=Msa0783360 |
| chr5_2 | mRNA | 67272893 | 67273198 | 67272893 | ID=Msa0783360-mRNA-1;Parent=Msa0783360;Name=Msa0783360-mRNA-1;_AED=0.55;_eAED=0.55;_QI=0|0|0|0.5|1|1|2|0|96 |
| chr5_2 | exon | 67273190 | 67273198 | 67273190 | ID=Msa0783360-mRNA-1:exon:20209;Parent=Msa0783360-mRNA-1 |
| chr5_2 | exon | 67272893 | 67273174 | 67272893 | ID=Msa0783360-mRNA-1:exon:20208;Parent=Msa0783360-mRNA-1 |
| chr5_2 | CDS | 67273190 | 67273198 | 67273190 | ID=Msa0783360-mRNA-1:cds;Parent=Msa0783360-mRNA-1 |
| chr5_2 | CDS | 67272893 | 67273174 | 67272893 | ID=Msa0783360-mRNA-1:cds;Parent=Msa0783360-mRNA-1 |
| Gene Sequence |
| Protein sequence |
