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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1084280 | KEH26293.1 | 65.581 | 215 | 34 | 1 | 1 | 175 | 1 | 215 | 2.94e-91 | 280 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1084280 | A0A072UB45 | 65.581 | 215 | 34 | 1 | 1 | 175 | 1 | 215 | 1.41e-91 | 280 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1084280 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1084280 | MtrunA17_Chr8g0363841 | 51.163 | 215 | 61 | 2 | 1 | 175 | 1 | 211 | 9.86e-69 | 221 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGAGATATTTAGGAGAAAA+AGG | 0.222726 | 7_2:-84537259 | Msa1084280:intron |
| CCATCTTGAAGCCATGTTCT+TGG | 0.280191 | 7_2:+84537591 | None:intergenic |
| GTTATGGTTATGTTGTCTTC+AGG | 0.304966 | 7_2:-84537086 | None:intergenic |
| ATTGTTCATAAACCCTTGTT+TGG | 0.336749 | 7_2:+84537490 | None:intergenic |
| GTCATGTTCTACTATTGTTA+TGG | 0.343318 | 7_2:-84537102 | Msa1084280:CDS |
| TTGACCAAGGAAAATATCTC+TGG | 0.381549 | 7_2:+84537649 | None:intergenic |
| CAGGGGATTGATTAAAGATT+GGG | 0.387768 | 7_2:+84537146 | None:intergenic |
| GCAGGGGATTGATTAAAGAT+TGG | 0.402047 | 7_2:+84537145 | None:intergenic |
| TCACCTACGATTTCTTCTTC+CGG | 0.408451 | 7_2:+84537464 | None:intergenic |
| CAATTTAATGTTAGCAAGGA+TGG | 0.448703 | 7_2:-84537392 | Msa1084280:CDS |
| GAAAAGATTAAATTAATTCA+AGG | 0.477387 | 7_2:-84537177 | Msa1084280:CDS |
| AGGGTTTATGAACAATGAAC+CGG | 0.492721 | 7_2:-84537483 | Msa1084280:CDS |
| CAAGAACATGGCTTCAAGAT+GGG | 0.500638 | 7_2:-84537590 | Msa1084280:CDS |
| CCAAGAACATGGCTTCAAGA+TGG | 0.507821 | 7_2:-84537591 | Msa1084280:CDS |
| CTTATCAAAGGGCTGATTCG+AGG | 0.508393 | 7_2:-84537436 | Msa1084280:CDS |
| GCAGGTGGATTTGATAAGCT+TGG | 0.516516 | 7_2:-84537237 | Msa1084280:CDS |
| TAGGTGAAATTGCTTATCAA+AGG | 0.520452 | 7_2:-84537448 | Msa1084280:CDS |
| ATGTTAGCAAGGATGGAGAA+TGG | 0.532233 | 7_2:-84537385 | Msa1084280:CDS |
| GATTATTACCGTTCCAAACA+AGG | 0.544182 | 7_2:-84537503 | Msa1084280:CDS |
| AGGTGAAATTGCTTATCAAA+GGG | 0.546039 | 7_2:-84537447 | Msa1084280:CDS |
| CGTGCAATTTAATGTTAGCA+AGG | 0.557319 | 7_2:-84537396 | Msa1084280:CDS |
| GCTCGAGCGGCACAAAAGCA+TGG | 0.572611 | 7_2:+84537333 | None:intergenic |
| TCATAAACCCTTGTTTGGAA+CGG | 0.573655 | 7_2:+84537495 | None:intergenic |
| TGACCAAGGAAAATATCTCT+GGG | 0.586640 | 7_2:+84537650 | None:intergenic |
| ATTATTACCGTTCCAAACAA+GGG | 0.591948 | 7_2:-84537502 | Msa1084280:CDS |
| CGCTATGCACAAATTGACCA+AGG | 0.619099 | 7_2:+84537636 | None:intergenic |
| TGGTCAATTTGTGCATAGCG+AGG | 0.625409 | 7_2:-84537633 | Msa1084280:CDS |
| AAGATTAAATTAATTCAAGG+TGG | 0.626279 | 7_2:-84537174 | Msa1084280:CDS |
| TATAACTTATACCAAGAACA+TGG | 0.642684 | 7_2:-84537602 | Msa1084280:CDS |
| GAACCGGAAGAAGAAATCGT+AGG | 0.675961 | 7_2:-84537467 | Msa1084280:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTGAATTAATTTAATCTTTT+CGG | + | chr7_2:84537602-84537621 | None:intergenic | 10.0% |
| !! | GAAAAGATTAAATTAATTCA+AGG | - | chr7_2:84537601-84537620 | Msa1084280:CDS | 15.0% |
| !! | ATCAGAAAGTTACTAATATT+TGG | - | chr7_2:84537499-84537518 | Msa1084280:CDS | 20.0% |
| !! | ACTAATATTTGGAGATATTT+AGG | - | chr7_2:84537510-84537529 | Msa1084280:CDS | 20.0% |
| !! | AAGATTAAATTAATTCAAGG+TGG | - | chr7_2:84537604-84537623 | Msa1084280:CDS | 20.0% |
| ! | TATAACTTATACCAAGAACA+TGG | - | chr7_2:84537176-84537195 | Msa1084280:CDS | 25.0% |
| !!! | ATGGGTTTTAGTGTAAAAAA+AGG | - | chr7_2:84537206-84537225 | Msa1084280:CDS | 25.0% |
| !!! | TGGGTTTTAGTGTAAAAAAA+GGG | - | chr7_2:84537207-84537226 | Msa1084280:CDS | 25.0% |
| ! | TTTGTTACTCTCTATAAGAA+TGG | - | chr7_2:84537475-84537494 | Msa1084280:CDS | 25.0% |
| ATTATTACCGTTCCAAACAA+GGG | - | chr7_2:84537276-84537295 | Msa1084280:intron | 30.0% | |
| ATTGTTCATAAACCCTTGTT+TGG | + | chr7_2:84537291-84537310 | None:intergenic | 30.0% | |
| TAGGTGAAATTGCTTATCAA+AGG | - | chr7_2:84537330-84537349 | Msa1084280:intron | 30.0% | |
| AGGTGAAATTGCTTATCAAA+GGG | - | chr7_2:84537331-84537350 | Msa1084280:intron | 30.0% | |
| CAATTTAATGTTAGCAAGGA+TGG | - | chr7_2:84537386-84537405 | Msa1084280:CDS | 30.0% | |
| TGGAGATATTTAGGAGAAAA+AGG | - | chr7_2:84537519-84537538 | Msa1084280:CDS | 30.0% | |
| GTCATGTTCTACTATTGTTA+TGG | - | chr7_2:84537676-84537695 | Msa1084280:CDS | 30.0% | |
| ! | AATCCCAGAGATATTTTCCT+TGG | - | chr7_2:84537125-84537144 | Msa1084280:CDS | 35.0% |
| TGACCAAGGAAAATATCTCT+GGG | + | chr7_2:84537131-84537150 | None:intergenic | 35.0% | |
| TTGACCAAGGAAAATATCTC+TGG | + | chr7_2:84537132-84537151 | None:intergenic | 35.0% | |
| GATTATTACCGTTCCAAACA+AGG | - | chr7_2:84537275-84537294 | Msa1084280:intron | 35.0% | |
| ! | TCATAAACCCTTGTTTGGAA+CGG | + | chr7_2:84537286-84537305 | None:intergenic | 35.0% |
| AGGGTTTATGAACAATGAAC+CGG | - | chr7_2:84537295-84537314 | Msa1084280:intron | 35.0% | |
| CGTGCAATTTAATGTTAGCA+AGG | - | chr7_2:84537382-84537401 | Msa1084280:CDS | 35.0% | |
| GATATTTAGGAGAAAAAGGC+AGG | - | chr7_2:84537523-84537542 | Msa1084280:CDS | 35.0% | |
| CAGGGGATTGATTAAAGATT+GGG | + | chr7_2:84537635-84537654 | None:intergenic | 35.0% | |
| ! | TTGTGCTTGTCTATTTTGCA+GGG | + | chr7_2:84537653-84537672 | None:intergenic | 35.0% |
| CAAGAACATGGCTTCAAGAT+GGG | - | chr7_2:84537188-84537207 | Msa1084280:CDS | 40.0% | |
| TCACCTACGATTTCTTCTTC+CGG | + | chr7_2:84537317-84537336 | None:intergenic | 40.0% | |
| ATGTTAGCAAGGATGGAGAA+TGG | - | chr7_2:84537393-84537412 | Msa1084280:CDS | 40.0% | |
| AACAAATGTCTTTGCTCGAG+CGG | + | chr7_2:84537461-84537480 | None:intergenic | 40.0% | |
| ATTTAGGAGAAAAAGGCAGG+TGG | - | chr7_2:84537526-84537545 | Msa1084280:CDS | 40.0% | |
| GCAGGGGATTGATTAAAGAT+TGG | + | chr7_2:84537636-84537655 | None:intergenic | 40.0% | |
| ! | TGTGCTTGTCTATTTTGCAG+GGG | + | chr7_2:84537652-84537671 | None:intergenic | 40.0% |
| ! | CTTGTGCTTGTCTATTTTGC+AGG | + | chr7_2:84537654-84537673 | None:intergenic | 40.0% |
| CGCTATGCACAAATTGACCA+AGG | + | chr7_2:84537145-84537164 | None:intergenic | 45.0% | |
| TGGTCAATTTGTGCATAGCG+AGG | - | chr7_2:84537145-84537164 | Msa1084280:CDS | 45.0% | |
| CCATCTTGAAGCCATGTTCT+TGG | + | chr7_2:84537190-84537209 | None:intergenic | 45.0% | |
| CCAAGAACATGGCTTCAAGA+TGG | - | chr7_2:84537187-84537206 | Msa1084280:CDS | 45.0% | |
| GAACCGGAAGAAGAAATCGT+AGG | - | chr7_2:84537311-84537330 | Msa1084280:intron | 45.0% | |
| !! | CTTATCAAAGGGCTGATTCG+AGG | - | chr7_2:84537342-84537361 | Msa1084280:intron | 45.0% |
| ! | GCAGGTGGATTTGATAAGCT+TGG | - | chr7_2:84537541-84537560 | Msa1084280:CDS | 45.0% |
| GCTCGAGCGGCACAAAAGCA+TGG | + | chr7_2:84537448-84537467 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 84537089 | 84537711 | 84537089 | ID=Msa1084280;Name=Msa1084280 |
| chr7_2 | mRNA | 84537089 | 84537711 | 84537089 | ID=Msa1084280-mRNA-1;Parent=Msa1084280;Name=Msa1084280-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0|0|0|1|1|0.5|2|0|182 |
| chr7_2 | exon | 84537346 | 84537711 | 84537346 | ID=Msa1084280-mRNA-1:exon:22636;Parent=Msa1084280-mRNA-1 |
| chr7_2 | exon | 84537089 | 84537268 | 84537089 | ID=Msa1084280-mRNA-1:exon:22635;Parent=Msa1084280-mRNA-1 |
| chr7_2 | CDS | 84537346 | 84537711 | 84537346 | ID=Msa1084280-mRNA-1:cds;Parent=Msa1084280-mRNA-1 |
| chr7_2 | CDS | 84537089 | 84537268 | 84537089 | ID=Msa1084280-mRNA-1:cds;Parent=Msa1084280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
