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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0939650 | RHN50232.1 | 75.294 | 85 | 15 | 1 | 3 | 87 | 64 | 142 | 3.80e-36 | 129 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0032370 | Msa0939650 | 0.805737 | 1.155105e-49 | -8.615850e-47 |
| Msa0622340 | Msa0939650 | 0.801389 | 9.214379e-49 | -8.615850e-47 |
| Msa0172350 | Msa0939650 | 0.814263 | 1.683824e-51 | -8.615850e-47 |
| Msa0267760 | Msa0939650 | 0.807285 | 5.446449e-50 | -8.615850e-47 |
| Msa0302650 | Msa0939650 | 0.802979 | 4.338179e-49 | -8.615850e-47 |
| Msa0506940 | Msa0939650 | 0.806564 | 7.735718e-50 | -8.615850e-47 |
| Msa0526700 | Msa0939650 | 0.808843 | 2.537690e-50 | -8.615850e-47 |
| Msa0526710 | Msa0939650 | 0.802375 | 5.779273e-49 | -8.615850e-47 |
| Msa0908170 | Msa0939650 | 0.804827 | 1.792093e-49 | -8.615850e-47 |
| Msa0939650 | Msa0958020 | 0.804175 | 2.450207e-49 | -8.615850e-47 |
| Msa0939650 | Msa1218650 | 0.807512 | 4.875433e-50 | -8.615850e-47 |
| Msa0939650 | Msa1390310 | 0.825908 | 3.627197e-54 | -8.615850e-47 |
| Msa0939650 | Msa1421380 | 0.882351 | 1.120569e-70 | -8.615850e-47 |
| Msa0939650 | Msa1439230 | 0.804141 | 2.491189e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0939650 | MtrunA17_Chr6g0455241 | 75.294 | 85 | 15 | 1 | 3 | 87 | 64 | 142 | 3.50e-40 | 129 |
| Msa0939650 | MtrunA17_Chr6g0455271 | 72.368 | 76 | 15 | 1 | 3 | 78 | 28 | 97 | 1.65e-31 | 107 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 15 sgRNAs with CRISPR-Local
Find 15 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTTGCTTGCCTTCTCAAAA+TGG | 0.248342 | 6_3:-11756271 | Msa0939650:CDS |
| TCATGCAGCAAGAATGCTTT+TGG | 0.265450 | 6_3:-11756374 | Msa0939650:CDS |
| TAAGTACCACACCTATTGTT+AGG | 0.386678 | 6_3:+11756241 | None:intergenic |
| GTACGATAGCCTTGAACTAT+AGG | 0.400696 | 6_3:+11756292 | None:intergenic |
| GTTAAGTGTCCTATAGTTCA+AGG | 0.442985 | 6_3:-11756301 | Msa0939650:CDS |
| CAAACACAAACTGGTAGAAC+TGG | 0.449515 | 6_3:-11756343 | Msa0939650:CDS |
| GATTTGAGTCAAACACAAAC+TGG | 0.464256 | 6_3:-11756352 | Msa0939650:CDS |
| CAAAGAAGAAAATGAACAAA+GGG | 0.478510 | 6_3:-11756477 | None:intergenic |
| ATGGAGGTGGACCTAACAAT+AGG | 0.486497 | 6_3:-11756252 | Msa0939650:CDS |
| GTAATTGGATTAATAAGATA+AGG | 0.501668 | 6_3:+11756439 | None:intergenic |
| TTGCCTTCTCAAAATGGAGG+TGG | 0.550109 | 6_3:-11756265 | Msa0939650:CDS |
| CCAAAGAAGAAAATGAACAA+AGG | 0.606112 | 6_3:-11756478 | None:intergenic |
| TGCTTGCCTTCTCAAAATGG+AGG | 0.620754 | 6_3:-11756268 | Msa0939650:CDS |
| GGTAGAACTGGTAACAACAA+TGG | 0.669601 | 6_3:-11756331 | Msa0939650:CDS |
| GGTGGACCTAACAATAGGTG+TGG | 0.694293 | 6_3:-11756247 | Msa0939650:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTAATTGGATTAATAAGATA+AGG | + | chr6_3:11756255-11756274 | None:intergenic | 20.0% |
| !! | ATGTTTTGCTTAGATGTAAT+TGG | + | chr6_3:11756270-11756289 | None:intergenic | 25.0% |
| GATTTGAGTCAAACACAAAC+TGG | - | chr6_3:11756339-11756358 | Msa0939650:CDS | 35.0% | |
| GTTAAGTGTCCTATAGTTCA+AGG | - | chr6_3:11756390-11756409 | Msa0939650:CDS | 35.0% | |
| TAAGTACCACACCTATTGTT+AGG | + | chr6_3:11756453-11756472 | None:intergenic | 35.0% | |
| ! | TCATGCAGCAAGAATGCTTT+TGG | - | chr6_3:11756317-11756336 | Msa0939650:CDS | 40.0% |
| CAAACACAAACTGGTAGAAC+TGG | - | chr6_3:11756348-11756367 | Msa0939650:CDS | 40.0% | |
| GGTAGAACTGGTAACAACAA+TGG | - | chr6_3:11756360-11756379 | Msa0939650:CDS | 40.0% | |
| ! | GTACGATAGCCTTGAACTAT+AGG | + | chr6_3:11756402-11756421 | None:intergenic | 40.0% |
| ACTTGCTTGCCTTCTCAAAA+TGG | - | chr6_3:11756420-11756439 | Msa0939650:CDS | 40.0% | |
| TGCTTGCCTTCTCAAAATGG+AGG | - | chr6_3:11756423-11756442 | Msa0939650:CDS | 45.0% | |
| TTGCCTTCTCAAAATGGAGG+TGG | - | chr6_3:11756426-11756445 | Msa0939650:CDS | 45.0% | |
| ATGGAGGTGGACCTAACAAT+AGG | - | chr6_3:11756439-11756458 | Msa0939650:CDS | 45.0% | |
| !! | GGTCCACCTCCATTTTGAGA+AGG | + | chr6_3:11756432-11756451 | None:intergenic | 50.0% |
| GGTGGACCTAACAATAGGTG+TGG | - | chr6_3:11756444-11756463 | Msa0939650:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 11756225 | 11756488 | 11756225 | ID=Msa0939650;Name=Msa0939650 |
| chr6_3 | mRNA | 11756225 | 11756488 | 11756225 | ID=Msa0939650-mRNA-1;Parent=Msa0939650;Name=Msa0939650-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|-1|0|1|-1|1|1|0|87 |
| chr6_3 | exon | 11756225 | 11756488 | 11756225 | ID=Msa0939650-mRNA-1:exon:3857;Parent=Msa0939650-mRNA-1 |
| chr6_3 | CDS | 11756225 | 11756488 | 11756225 | ID=Msa0939650-mRNA-1:cds;Parent=Msa0939650-mRNA-1 |
| Gene Sequence |
| Protein sequence |
