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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443750 | XP_039687301.1 | 94.203 | 69 | 4 | 0 | 1 | 69 | 1264 | 1332 | 6.70e-37 | 141 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443750 | sp|Q9M1I1|FB304_ARATH | 53.623 | 69 | 32 | 0 | 1 | 69 | 1288 | 1356 | 1.53e-17 | 77.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443750 | A0A396ILR4 | 94.203 | 69 | 4 | 0 | 1 | 69 | 1263 | 1331 | 3.23e-37 | 141 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0443750 | Msa1351080 | 0.827329 | 1.661748e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443750 | MtrunA17_Chr3g0083491 | 94.203 | 69 | 4 | 0 | 1 | 69 | 1263 | 1331 | 6.23e-41 | 141 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0443750 | AT3G54460.2 | 53.623 | 69 | 32 | 0 | 1 | 69 | 991 | 1059 | 1.36e-18 | 78.2 |
| Msa0443750 | AT3G54460.1 | 53.623 | 69 | 32 | 0 | 1 | 69 | 1288 | 1356 | 1.55e-18 | 77.8 |
Find 26 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCCCTGCCATCGTCAGATT+TGG | 0.324141 | 3_3:-15694620 | None:intergenic |
| GCTAAGGTTTCCACGTGAAT+AGG | 0.359375 | 3_3:-15694391 | None:intergenic |
| TAAGAAATTTAGACCTTGTC+AGG | 0.368473 | 3_3:+15694320 | Msa0443750:five_prime_UTR |
| TGCTGAAAACAATTATCTAC+TGG | 0.385508 | 3_3:+15694669 | Msa0443750:CDS |
| ACATACAAAATTGTGTTTCC+CGG | 0.400683 | 3_3:-15694767 | None:intergenic |
| TTTCCAAATCTGACGATGGC+AGG | 0.440047 | 3_3:+15694617 | Msa0443750:CDS |
| TCTGACGATGGCAGGGGACG+AGG | 0.475481 | 3_3:+15694625 | Msa0443750:CDS |
| TGTGCCACATACAAACCTTC+CGG | 0.476709 | 3_3:-15694724 | None:intergenic |
| AATTAGTCGTGCCCATCGTA+TGG | 0.491970 | 3_3:+15694357 | Msa0443750:exon |
| TTCCCGGAAAAGCTAGAATC+CGG | 0.524017 | 3_3:-15694751 | None:intergenic |
| AATTGTACCACGCATTGCTA+AGG | 0.531736 | 3_3:-15694407 | None:intergenic |
| TTCCAAATCTGACGATGGCA+GGG | 0.553847 | 3_3:+15694618 | Msa0443750:CDS |
| ATAAACTTGTTCAGAAACTC+CGG | 0.563498 | 3_3:+15694705 | Msa0443750:exon |
| TCCAAATCTGACGATGGCAG+GGG | 0.572024 | 3_3:+15694619 | Msa0443750:CDS |
| CTTGCTCCTCCGTCCTGACA+AGG | 0.580574 | 3_3:-15694333 | None:intergenic |
| ATTAGTCGTGCCCATCGTAT+GGG | 0.583520 | 3_3:+15694358 | Msa0443750:exon |
| AAATTTAGACCTTGTCAGGA+CGG | 0.586307 | 3_3:+15694324 | Msa0443750:five_prime_UTR |
| GACGAGAAGCACCCATACGA+TGG | 0.594811 | 3_3:-15694369 | None:intergenic |
| TGCTTCTCGTCCTATTCACG+TGG | 0.599877 | 3_3:+15694381 | Msa0443750:CDS |
| CTGACGATGGCAGGGGACGA+GGG | 0.613499 | 3_3:+15694626 | Msa0443750:CDS |
| ACGAGAAGCACCCATACGAT+GGG | 0.620312 | 3_3:-15694368 | None:intergenic |
| ACTTGTTCAGAAACTCCGGA+AGG | 0.630459 | 3_3:+15694709 | Msa0443750:three_prime_UTR |
| AACTCCGGAAGGTTTGTATG+TGG | 0.633121 | 3_3:+15694720 | Msa0443750:three_prime_UTR |
| GATGTTTCCAAATCTGACGA+TGG | 0.663090 | 3_3:+15694613 | Msa0443750:CDS |
| TTTAGACCTTGTCAGGACGG+AGG | 0.663256 | 3_3:+15694327 | Msa0443750:five_prime_UTR |
| GTGGAAACCTTAGCAATGCG+TGG | 0.686228 | 3_3:+15694400 | Msa0443750:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAATTATTAGGAAAATAAAA+AGG | - | chr3_3:15694532-15694551 | None:intergenic | 15.0% |
| !!! | AAATAGAAGCATGAATTATT+AGG | - | chr3_3:15694544-15694563 | None:intergenic | 20.0% |
| !!! | TTTTTGAATGGCTTGTTATT+TGG | + | chr3_3:15694471-15694490 | Msa0443750:intron | 25.0% |
| TAAGAAATTTAGACCTTGTC+AGG | + | chr3_3:15694320-15694339 | Msa0443750:five_prime_UTR | 30.0% | |
| !!! | ATTTTTTACAAGTGATGCTC+AGG | + | chr3_3:15694446-15694465 | Msa0443750:intron | 30.0% |
| ! | CTATTTCTTGATGTTCAACA+AGG | + | chr3_3:15694558-15694577 | Msa0443750:intron | 30.0% |
| TGCTGAAAACAATTATCTAC+TGG | + | chr3_3:15694669-15694688 | Msa0443750:CDS | 30.0% | |
| ! | ATAAACTTGTTCAGAAACTC+CGG | + | chr3_3:15694705-15694724 | Msa0443750:exon | 30.0% |
| ACATACAAAATTGTGTTTCC+CGG | - | chr3_3:15694770-15694789 | None:intergenic | 30.0% | |
| ! | GGAAACACAATTTTGTATGT+AGG | + | chr3_3:15694770-15694789 | Msa0443750:three_prime_UTR | 30.0% |
| AAATTTAGACCTTGTCAGGA+CGG | + | chr3_3:15694324-15694343 | Msa0443750:five_prime_UTR | 35.0% | |
| !!! | GATGCTCAGGTTTTTTTGAA+TGG | + | chr3_3:15694459-15694478 | Msa0443750:intron | 35.0% |
| ! | TTTGTATGTGGCACATTTTC+CGG | + | chr3_3:15694732-15694751 | Msa0443750:three_prime_UTR | 35.0% |
| AATTGTACCACGCATTGCTA+AGG | - | chr3_3:15694410-15694429 | None:intergenic | 40.0% | |
| GATGTTTCCAAATCTGACGA+TGG | + | chr3_3:15694613-15694632 | Msa0443750:CDS | 40.0% | |
| !!! | TTTCCGGATTCTAGCTTTTC+CGG | + | chr3_3:15694748-15694767 | Msa0443750:three_prime_UTR | 40.0% |
| AATTAGTCGTGCCCATCGTA+TGG | + | chr3_3:15694357-15694376 | Msa0443750:exon | 45.0% | |
| ATTAGTCGTGCCCATCGTAT+GGG | + | chr3_3:15694358-15694377 | Msa0443750:exon | 45.0% | |
| GCTAAGGTTTCCACGTGAAT+AGG | - | chr3_3:15694394-15694413 | None:intergenic | 45.0% | |
| TTTCCAAATCTGACGATGGC+AGG | + | chr3_3:15694617-15694636 | Msa0443750:CDS | 45.0% | |
| TTCCAAATCTGACGATGGCA+GGG | + | chr3_3:15694618-15694637 | Msa0443750:CDS | 45.0% | |
| ACTTGTTCAGAAACTCCGGA+AGG | + | chr3_3:15694709-15694728 | Msa0443750:three_prime_UTR | 45.0% | |
| AACTCCGGAAGGTTTGTATG+TGG | + | chr3_3:15694720-15694739 | Msa0443750:three_prime_UTR | 45.0% | |
| TGTGCCACATACAAACCTTC+CGG | - | chr3_3:15694727-15694746 | None:intergenic | 45.0% | |
| !!! | TTCCGGATTCTAGCTTTTCC+GGG | + | chr3_3:15694749-15694768 | Msa0443750:three_prime_UTR | 45.0% |
| TTCCCGGAAAAGCTAGAATC+CGG | - | chr3_3:15694754-15694773 | None:intergenic | 45.0% | |
| TTTAGACCTTGTCAGGACGG+AGG | + | chr3_3:15694327-15694346 | Msa0443750:five_prime_UTR | 50.0% | |
| !! | ACGAGAAGCACCCATACGAT+GGG | - | chr3_3:15694371-15694390 | None:intergenic | 50.0% |
| TGCTTCTCGTCCTATTCACG+TGG | + | chr3_3:15694381-15694400 | Msa0443750:CDS | 50.0% | |
| GTGGAAACCTTAGCAATGCG+TGG | + | chr3_3:15694400-15694419 | Msa0443750:CDS | 50.0% | |
| TCCAAATCTGACGATGGCAG+GGG | + | chr3_3:15694619-15694638 | Msa0443750:CDS | 50.0% | |
| !! | GACGAGAAGCACCCATACGA+TGG | - | chr3_3:15694372-15694391 | None:intergenic | 55.0% |
| TCCCCTGCCATCGTCAGATT+TGG | - | chr3_3:15694623-15694642 | None:intergenic | 55.0% | |
| CTTGCTCCTCCGTCCTGACA+AGG | - | chr3_3:15694336-15694355 | None:intergenic | 60.0% | |
| TCTGACGATGGCAGGGGACG+AGG | + | chr3_3:15694625-15694644 | Msa0443750:CDS | 65.0% | |
| CTGACGATGGCAGGGGACGA+GGG | + | chr3_3:15694626-15694645 | Msa0443750:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 15694277 | 15694803 | 15694277 | ID=Msa0443750;Name=Msa0443750 |
| chr3_3 | mRNA | 15694277 | 15694803 | 15694277 | ID=Msa0443750-mRNA-1;Parent=Msa0443750;Name=Msa0443750-mRNA-1;_AED=0.00;_eAED=0.00;_QI=99|1|1|1|0|0.5|2|95|69 |
| chr3_3 | exon | 15694277 | 15694456 | 15694277 | ID=Msa0443750-mRNA-1:exon:3311;Parent=Msa0443750-mRNA-1 |
| chr3_3 | exon | 15694580 | 15694803 | 15694580 | ID=Msa0443750-mRNA-1:exon:3312;Parent=Msa0443750-mRNA-1 |
| chr3_3 | five_prime_UTR | 15694277 | 15694375 | 15694277 | ID=Msa0443750-mRNA-1:five_prime_utr;Parent=Msa0443750-mRNA-1 |
| chr3_3 | CDS | 15694376 | 15694456 | 15694376 | ID=Msa0443750-mRNA-1:cds;Parent=Msa0443750-mRNA-1 |
| chr3_3 | CDS | 15694580 | 15694708 | 15694580 | ID=Msa0443750-mRNA-1:cds;Parent=Msa0443750-mRNA-1 |
| chr3_3 | three_prime_UTR | 15694709 | 15694803 | 15694709 | ID=Msa0443750-mRNA-1:three_prime_utr;Parent=Msa0443750-mRNA-1 |
| Gene Sequence |
| Protein sequence |
