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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0410520 | XP_039687084.1 | 80.328 | 122 | 22 | 1 | 1 | 120 | 1 | 122 | 2.69e-61 | 193 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0410520 | G7INX6 | 80.328 | 122 | 22 | 1 | 1 | 120 | 1 | 122 | 1.28e-61 | 193 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0410520 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0410520 | MtrunA17_Chr2g0281511 | 80.328 | 122 | 22 | 1 | 1 | 120 | 1 | 122 | 2.47e-65 | 193 |
| Msa0410520 | MtrunA17_Chr2g0309121 | 77.869 | 122 | 24 | 2 | 1 | 120 | 1 | 121 | 7.09e-62 | 185 |
| Msa0410520 | MtrunA17_Chr3g0081891 | 81.250 | 80 | 13 | 1 | 1 | 78 | 1 | 80 | 9.73e-39 | 125 |
| Msa0410520 | MtrunA17_Chr7g0276661 | 35.484 | 93 | 58 | 2 | 26 | 117 | 75 | 166 | 8.18e-13 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 17 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGTTACTGCTTCTATTT+TGG | 0.123735 | 3_2:-52152384 | Msa0410520:CDS |
| GAAGTCAATGGTACTGAATT+AGG | 0.159497 | 3_2:-52152443 | Msa0410520:CDS |
| TGTATGCTACCGTCGTTAAT+TGG | 0.198459 | 3_2:-52152018 | Msa0410520:CDS |
| ATCAAAGTCATAAGATTTAC+CGG | 0.326757 | 3_2:+52152168 | None:intergenic |
| CCTCGACGTGTTGCTGAGAA+TGG | 0.340072 | 3_2:-52152235 | Msa0410520:CDS |
| CGATCAATAATCTTCATAAT+AGG | 0.343161 | 3_2:-52152042 | Msa0410520:CDS |
| GTATGCTACCGTCGTTAATT+GGG | 0.404620 | 3_2:-52152017 | Msa0410520:CDS |
| CTCCTTTCTGATGAAGAAAC+CGG | 0.423994 | 3_2:-52152187 | Msa0410520:CDS |
| AAGTCAATGGTACTGAATTA+GGG | 0.437113 | 3_2:-52152442 | Msa0410520:CDS |
| TACCGGTTTCTTCATCAGAA+AGG | 0.468368 | 3_2:+52152185 | None:intergenic |
| ATACTTCTTGTAATGTACAT+TGG | 0.520218 | 3_2:+52152406 | None:intergenic |
| CTTGAAAATGACCTAAAAGT+TGG | 0.531962 | 3_2:-52152082 | Msa0410520:CDS |
| GAGATTGGAGTTGAAGTCAA+TGG | 0.575541 | 3_2:-52152455 | Msa0410520:CDS |
| AGCATGCATCAGAAATACAT+AGG | 0.628365 | 3_2:-52152127 | Msa0410520:CDS |
| AGAAATACATAGGTAGAGCA+TGG | 0.629193 | 3_2:-52152117 | Msa0410520:CDS |
| CCATTCTCAGCAACACGTCG+AGG | 0.662672 | 3_2:+52152235 | None:intergenic |
| GAATCAGTCCCAATTAACGA+CGG | 0.716201 | 3_2:+52152009 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATACTTCTTGTAATGTACAT+TGG | + | chr3_2:52152070-52152089 | None:intergenic | 25.0% |
| !! | TAATGTTACTGCTTCTATTT+TGG | - | chr3_2:52152089-52152108 | Msa0410520:CDS | 25.0% |
| ! | ATCAAAGTCATAAGATTTAC+CGG | + | chr3_2:52152308-52152327 | None:intergenic | 25.0% |
| ! | CGATCAATAATCTTCATAAT+AGG | - | chr3_2:52152431-52152450 | Msa0410520:CDS | 25.0% |
| ! | AAGTCAATGGTACTGAATTA+GGG | - | chr3_2:52152031-52152050 | Msa0410520:CDS | 30.0% |
| CTTGAAAATGACCTAAAAGT+TGG | - | chr3_2:52152391-52152410 | Msa0410520:CDS | 30.0% | |
| ! | AAATAACGTCACCAACTTTT+AGG | + | chr3_2:52152405-52152424 | None:intergenic | 30.0% |
| ! | GAAGTCAATGGTACTGAATT+AGG | - | chr3_2:52152030-52152049 | Msa0410520:CDS | 35.0% |
| !! | GTTACTGCTTCTATTTTGGA+TGG | - | chr3_2:52152093-52152112 | Msa0410520:CDS | 35.0% |
| GGAAACAATGTTCTACTTAG+TGG | - | chr3_2:52152114-52152133 | Msa0410520:CDS | 35.0% | |
| AGCATGCATCAGAAATACAT+AGG | - | chr3_2:52152346-52152365 | Msa0410520:intron | 35.0% | |
| AGAAATACATAGGTAGAGCA+TGG | - | chr3_2:52152356-52152375 | Msa0410520:intron | 35.0% | |
| GAGATTGGAGTTGAAGTCAA+TGG | - | chr3_2:52152018-52152037 | Msa0410520:CDS | 40.0% | |
| CTCCTTTCTGATGAAGAAAC+CGG | - | chr3_2:52152286-52152305 | Msa0410520:intron | 40.0% | |
| !! | TACCGGTTTCTTCATCAGAA+AGG | + | chr3_2:52152291-52152310 | None:intergenic | 40.0% |
| TGTATGCTACCGTCGTTAAT+TGG | - | chr3_2:52152455-52152474 | Msa0410520:CDS | 40.0% | |
| GTATGCTACCGTCGTTAATT+GGG | - | chr3_2:52152456-52152475 | Msa0410520:CDS | 40.0% | |
| CCATTCTCAGCAACACGTCG+AGG | + | chr3_2:52152241-52152260 | None:intergenic | 55.0% | |
| ! | CCTCGACGTGTTGCTGAGAA+TGG | - | chr3_2:52152238-52152257 | Msa0410520:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 52152012 | 52152483 | 52152012 | ID=Msa0410520;Name=Msa0410520 |
| chr3_2 | mRNA | 52152012 | 52152483 | 52152012 | ID=Msa0410520-mRNA-1;Parent=Msa0410520;Name=Msa0410520-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0|0|1|1|1|2|0|120 |
| chr3_2 | exon | 52152373 | 52152483 | 52152373 | ID=Msa0410520-mRNA-1:exon:10321;Parent=Msa0410520-mRNA-1 |
| chr3_2 | exon | 52152012 | 52152263 | 52152012 | ID=Msa0410520-mRNA-1:exon:10320;Parent=Msa0410520-mRNA-1 |
| chr3_2 | CDS | 52152373 | 52152483 | 52152373 | ID=Msa0410520-mRNA-1:cds;Parent=Msa0410520-mRNA-1 |
| chr3_2 | CDS | 52152012 | 52152263 | 52152012 | ID=Msa0410520-mRNA-1:cds;Parent=Msa0410520-mRNA-1 |
| Gene Sequence |
| Protein sequence |
