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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0516350 | KEH26293.1 | 81.429 | 140 | 26 | 0 | 1 | 140 | 1 | 140 | 1.36e-77 | 243 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0516350 | A0A072UB45 | 81.429 | 140 | 26 | 0 | 1 | 140 | 1 | 140 | 6.51e-78 | 243 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0516350 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0516350 | MtrunA17_Chr8g0363841 | 64.493 | 138 | 45 | 1 | 1 | 138 | 1 | 134 | 1.38e-59 | 194 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 24 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCATCTTGAAGCCATGTTCT+TGG | 0.280191 | 3_4:-67882113 | None:intergenic |
| ATTGTTCATAAACCCTTGTT+TGG | 0.336749 | 3_4:-67882214 | None:intergenic |
| TTGACCAAGGAAAATATCTC+TGG | 0.381549 | 3_4:-67882055 | None:intergenic |
| TCACCTACGATTTCTTCTTC+CGG | 0.408451 | 3_4:-67882240 | None:intergenic |
| CAATTTAATGTTAGCAAGGA+TGG | 0.448703 | 3_4:+67882312 | Msa0516350:CDS |
| TTTGTTACTCTCTATAAGAA+TGG | 0.465519 | 3_4:+67882401 | Msa0516350:CDS |
| AGGGTTTATGAACAATGAAC+CGG | 0.492721 | 3_4:+67882221 | Msa0516350:CDS |
| CAAGAACATGGCTTCAAGAT+GGG | 0.500638 | 3_4:+67882114 | Msa0516350:CDS |
| CCAAGAACATGGCTTCAAGA+TGG | 0.507821 | 3_4:+67882113 | Msa0516350:CDS |
| CTTATCAAAGGGCTGATTCG+AGG | 0.508393 | 3_4:+67882268 | Msa0516350:CDS |
| TAGGTGAAATTGCTTATCAA+AGG | 0.520452 | 3_4:+67882256 | Msa0516350:CDS |
| ATGTTAGCAAGGATGGAGAA+TGG | 0.532233 | 3_4:+67882319 | Msa0516350:CDS |
| GATTATTACCGTTCCAAACA+AGG | 0.544182 | 3_4:+67882201 | Msa0516350:CDS |
| AGGTGAAATTGCTTATCAAA+GGG | 0.546039 | 3_4:+67882257 | Msa0516350:CDS |
| CGTGCAATTTAATGTTAGCA+AGG | 0.557319 | 3_4:+67882308 | Msa0516350:CDS |
| GCTCGAGCGGCACAAAAGCA+TGG | 0.572611 | 3_4:-67882371 | None:intergenic |
| TCATAAACCCTTGTTTGGAA+CGG | 0.573655 | 3_4:-67882209 | None:intergenic |
| TGACCAAGGAAAATATCTCT+GGG | 0.586640 | 3_4:-67882054 | None:intergenic |
| ATTATTACCGTTCCAAACAA+GGG | 0.591948 | 3_4:+67882202 | Msa0516350:CDS |
| CGCTATGCACAAATTGACCA+AGG | 0.619099 | 3_4:-67882068 | None:intergenic |
| TGGTCAATTTGTGCATAGCG+AGG | 0.625409 | 3_4:+67882071 | Msa0516350:CDS |
| TATAACTTATACCAAGAACA+TGG | 0.642684 | 3_4:+67882102 | Msa0516350:CDS |
| AACAAATGTCTTTGCTCGAG+CGG | 0.643644 | 3_4:-67882384 | None:intergenic |
| GAACCGGAAGAAGAAATCGT+AGG | 0.675961 | 3_4:+67882237 | Msa0516350:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TATAACTTATACCAAGAACA+TGG | + | chr3_4:67882102-67882121 | Msa0516350:CDS | 25.0% |
| !!! | ATGGGTTTTAGTGTAAAAAA+AGG | + | chr3_4:67882132-67882151 | Msa0516350:CDS | 25.0% |
| !!! | TGGGTTTTAGTGTAAAAAAA+GGG | + | chr3_4:67882133-67882152 | Msa0516350:CDS | 25.0% |
| ! | TTTGTTACTCTCTATAAGAA+TGG | + | chr3_4:67882401-67882420 | Msa0516350:CDS | 25.0% |
| ATTATTACCGTTCCAAACAA+GGG | + | chr3_4:67882202-67882221 | Msa0516350:CDS | 30.0% | |
| ATTGTTCATAAACCCTTGTT+TGG | - | chr3_4:67882217-67882236 | None:intergenic | 30.0% | |
| TAGGTGAAATTGCTTATCAA+AGG | + | chr3_4:67882256-67882275 | Msa0516350:CDS | 30.0% | |
| AGGTGAAATTGCTTATCAAA+GGG | + | chr3_4:67882257-67882276 | Msa0516350:CDS | 30.0% | |
| CAATTTAATGTTAGCAAGGA+TGG | + | chr3_4:67882312-67882331 | Msa0516350:CDS | 30.0% | |
| ! | AATCCCAGAGATATTTTCCT+TGG | + | chr3_4:67882051-67882070 | Msa0516350:CDS | 35.0% |
| TGACCAAGGAAAATATCTCT+GGG | - | chr3_4:67882057-67882076 | None:intergenic | 35.0% | |
| TTGACCAAGGAAAATATCTC+TGG | - | chr3_4:67882058-67882077 | None:intergenic | 35.0% | |
| GATTATTACCGTTCCAAACA+AGG | + | chr3_4:67882201-67882220 | Msa0516350:CDS | 35.0% | |
| ! | TCATAAACCCTTGTTTGGAA+CGG | - | chr3_4:67882212-67882231 | None:intergenic | 35.0% |
| AGGGTTTATGAACAATGAAC+CGG | + | chr3_4:67882221-67882240 | Msa0516350:CDS | 35.0% | |
| CGTGCAATTTAATGTTAGCA+AGG | + | chr3_4:67882308-67882327 | Msa0516350:CDS | 35.0% | |
| CAAGAACATGGCTTCAAGAT+GGG | + | chr3_4:67882114-67882133 | Msa0516350:CDS | 40.0% | |
| TCACCTACGATTTCTTCTTC+CGG | - | chr3_4:67882243-67882262 | None:intergenic | 40.0% | |
| ATGTTAGCAAGGATGGAGAA+TGG | + | chr3_4:67882319-67882338 | Msa0516350:CDS | 40.0% | |
| AACAAATGTCTTTGCTCGAG+CGG | - | chr3_4:67882387-67882406 | None:intergenic | 40.0% | |
| CGCTATGCACAAATTGACCA+AGG | - | chr3_4:67882071-67882090 | None:intergenic | 45.0% | |
| TGGTCAATTTGTGCATAGCG+AGG | + | chr3_4:67882071-67882090 | Msa0516350:CDS | 45.0% | |
| CCATCTTGAAGCCATGTTCT+TGG | - | chr3_4:67882116-67882135 | None:intergenic | 45.0% | |
| CCAAGAACATGGCTTCAAGA+TGG | + | chr3_4:67882113-67882132 | Msa0516350:CDS | 45.0% | |
| GAACCGGAAGAAGAAATCGT+AGG | + | chr3_4:67882237-67882256 | Msa0516350:CDS | 45.0% | |
| !! | CTTATCAAAGGGCTGATTCG+AGG | + | chr3_4:67882268-67882287 | Msa0516350:CDS | 45.0% |
| GCTCGAGCGGCACAAAAGCA+TGG | - | chr3_4:67882374-67882393 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 67882015 | 67882440 | 67882015 | ID=Msa0516350;Name=Msa0516350 |
| chr3_4 | mRNA | 67882015 | 67882440 | 67882015 | ID=Msa0516350-mRNA-1;Parent=Msa0516350;Name=Msa0516350-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|-1|0|1|-1|1|1|0|141 |
| chr3_4 | exon | 67882015 | 67882440 | 67882015 | ID=Msa0516350-mRNA-1:exon:17750;Parent=Msa0516350-mRNA-1 |
| chr3_4 | CDS | 67882015 | 67882440 | 67882015 | ID=Msa0516350-mRNA-1:cds;Parent=Msa0516350-mRNA-1 |
| Gene Sequence |
| Protein sequence |
