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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0465050 | XP_024634011.2 | 96.330 | 109 | 3 | 1 | 1 | 108 | 42 | 150 | 4.65e-68 | 211 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0465050 | A0A396IWG2 | 96.330 | 109 | 3 | 1 | 1 | 108 | 1 | 109 | 1.62e-67 | 207 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0193200 | Msa0465050 | 0.804357 | 2.245540e-49 | -8.615850e-47 |
| Msa0417130 | Msa0465050 | 0.812690 | 3.733453e-51 | -8.615850e-47 |
| Msa0419300 | Msa0465050 | 0.803095 | 4.104725e-49 | -8.615850e-47 |
| Msa0465050 | Msa1120370 | 0.801756 | 7.746993e-49 | -8.615850e-47 |
| Msa0465050 | Msa1180200 | 0.810667 | 1.028410e-50 | -8.615850e-47 |
| Msa0465050 | Msa1245720 | 0.809266 | 2.059923e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0465050 | MtrunA17_Chr3g0116971 | 96.330 | 109 | 3 | 1 | 1 | 108 | 1 | 109 | 3.12e-71 | 207 |
| Msa0465050 | MtrunA17_Chr3g0116951 | 68.908 | 119 | 23 | 6 | 1 | 108 | 6 | 121 | 6.17e-42 | 135 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 45 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAACCCTCTCAACGATTTC+AGG | 0.158944 | 3_3:+65303630 | None:intergenic |
| TTGAAGGCCATTTCACCATT+TGG | 0.306022 | 3_3:+65303717 | None:intergenic |
| GTACCTGAGGTTAGGCCTTA+TGG | 0.364536 | 3_3:-65303588 | Msa0465050:CDS |
| GGTTGTGGTGGTGGCGGCCA+TGG | 0.367830 | 3_3:+65303652 | None:intergenic |
| CCTTCGTGGGTAATGTTGAT+TGG | 0.388716 | 3_3:+65303527 | None:intergenic |
| CGATTTCAGGGTTGTGGTGG+TGG | 0.397034 | 3_3:+65303643 | None:intergenic |
| TGAAGGCCATTTCACCATTT+GGG | 0.397228 | 3_3:+65303718 | None:intergenic |
| CAACCCTCTCAACGATTTCA+GGG | 0.425008 | 3_3:+65303631 | None:intergenic |
| CCATTTGACCTGTTCCTTCG+TGG | 0.432698 | 3_3:+65303513 | None:intergenic |
| ATAGACAACCCTCTTGTTGA+AGG | 0.438765 | 3_3:+65303701 | None:intergenic |
| TCGCTACCCAAATGGTGAAA+TGG | 0.439411 | 3_3:-65303724 | Msa0465050:CDS |
| GTCACTCATGGAATACATTC+AGG | 0.444691 | 3_3:-65303491 | Msa0465050:CDS |
| CATTTGACCTGTTCCTTCGT+GGG | 0.467646 | 3_3:+65303514 | None:intergenic |
| CAACAAGAGGGTTGTCTATG+AGG | 0.468986 | 3_3:-65303697 | Msa0465050:CDS |
| CCCTTCGAACTTCTGAAATG+TGG | 0.470828 | 3_3:+65303763 | None:intergenic |
| TCTCAACGATTTCAGGGTTG+TGG | 0.485866 | 3_3:+65303637 | None:intergenic |
| TTTCAGGGTTGTGGTGGTGG+CGG | 0.488542 | 3_3:+65303646 | None:intergenic |
| CGTTGAGAGGGTTGAAGTGG+TGG | 0.489360 | 3_3:-65303622 | Msa0465050:CDS |
| AACATTACCCACGAAGGAAC+AGG | 0.491085 | 3_3:-65303521 | Msa0465050:CDS |
| TATGAGGAGGATGCGATTGA+AGG | 0.492172 | 3_3:-65303681 | Msa0465050:CDS |
| CCACGAAGGAACAGGTCAAA+TGG | 0.498880 | 3_3:-65303513 | Msa0465050:CDS |
| GTGAAATGGCCTTCAACAAG+AGG | 0.508259 | 3_3:-65303710 | Msa0465050:CDS |
| GAATACTCTCGCTACCCAAA+TGG | 0.533741 | 3_3:-65303732 | Msa0465050:CDS |
| TAGATCACTTGACCACCATA+AGG | 0.541890 | 3_3:+65303573 | None:intergenic |
| CCTTCGAACTTCTGAAATGT+GGG | 0.541962 | 3_3:+65303764 | None:intergenic |
| CCCACATTTCAGAAGTTCGA+AGG | 0.543003 | 3_3:-65303764 | Msa0465050:CDS |
| ATGAACGTGTACCTGAGGTT+AGG | 0.543426 | 3_3:-65303596 | Msa0465050:CDS |
| ACAGGTCAAATGGTCACTCA+TGG | 0.552434 | 3_3:-65303503 | Msa0465050:CDS |
| CAACGATTTCAGGGTTGTGG+TGG | 0.564097 | 3_3:+65303640 | None:intergenic |
| AATGTGGGTGTGGTAGTCAT+TGG | 0.581040 | 3_3:+65303779 | None:intergenic |
| GGGTAGCGAGAGTATTCGCT+AGG | 0.581864 | 3_3:+65303738 | None:intergenic |
| AGTGATCTACGAAGAGGACG+TGG | 0.585316 | 3_3:-65303559 | Msa0465050:CDS |
| CCACCATAAGGCCTAACCTC+AGG | 0.605385 | 3_3:+65303585 | None:intergenic |
| GAACTTCTGAAATGTGGGTG+TGG | 0.614497 | 3_3:+65303769 | None:intergenic |
| CCACATTTCAGAAGTTCGAA+GGG | 0.620439 | 3_3:-65303763 | Msa0465050:CDS |
| CAACCCTGAAATCGTTGAGA+GGG | 0.621410 | 3_3:-65303634 | Msa0465050:CDS |
| ACAACCCTGAAATCGTTGAG+AGG | 0.647655 | 3_3:-65303635 | Msa0465050:CDS |
| CAAGAGGGTTGTCTATGAGG+AGG | 0.649483 | 3_3:-65303694 | Msa0465050:CDS |
| CCTGAGGTTAGGCCTTATGG+TGG | 0.650879 | 3_3:-65303585 | Msa0465050:CDS |
| GCGATTGAAGGATCACGCCA+TGG | 0.655981 | 3_3:-65303669 | Msa0465050:CDS |
| TGAAATGGCCTTCAACAAGA+GGG | 0.667194 | 3_3:-65303709 | Msa0465050:CDS |
| TGGTCAAGTGATCTACGAAG+AGG | 0.694239 | 3_3:-65303565 | Msa0465050:CDS |
| AATCGTTGAGAGGGTTGAAG+TGG | 0.698905 | 3_3:-65303625 | Msa0465050:CDS |
| CCAATCAACATTACCCACGA+AGG | 0.702298 | 3_3:-65303527 | Msa0465050:CDS |
| GGAATATGAACGTGTACCTG+AGG | 0.717370 | 3_3:-65303601 | Msa0465050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CCTTCGAACTTCTGAAATGT+GGG | + | chr3_3:65303513-65303532 | None:intergenic | 40.0% |
| CCACATTTCAGAAGTTCGAA+GGG | - | chr3_3:65303511-65303530 | Msa0465050:CDS | 40.0% | |
| TGAAGGCCATTTCACCATTT+GGG | + | chr3_3:65303559-65303578 | None:intergenic | 40.0% | |
| TTGAAGGCCATTTCACCATT+TGG | + | chr3_3:65303560-65303579 | None:intergenic | 40.0% | |
| TGAAATGGCCTTCAACAAGA+GGG | - | chr3_3:65303565-65303584 | Msa0465050:CDS | 40.0% | |
| ATAGACAACCCTCTTGTTGA+AGG | + | chr3_3:65303576-65303595 | None:intergenic | 40.0% | |
| TAGATCACTTGACCACCATA+AGG | + | chr3_3:65303704-65303723 | None:intergenic | 40.0% | |
| GTCACTCATGGAATACATTC+AGG | - | chr3_3:65303783-65303802 | Msa0465050:CDS | 40.0% | |
| AATGTGGGTGTGGTAGTCAT+TGG | + | chr3_3:65303498-65303517 | None:intergenic | 45.0% | |
| !! | GAACTTCTGAAATGTGGGTG+TGG | + | chr3_3:65303508-65303527 | None:intergenic | 45.0% |
| CCCACATTTCAGAAGTTCGA+AGG | - | chr3_3:65303510-65303529 | Msa0465050:CDS | 45.0% | |
| !! | CCCTTCGAACTTCTGAAATG+TGG | + | chr3_3:65303514-65303533 | None:intergenic | 45.0% |
| GAATACTCTCGCTACCCAAA+TGG | - | chr3_3:65303542-65303561 | Msa0465050:CDS | 45.0% | |
| TCGCTACCCAAATGGTGAAA+TGG | - | chr3_3:65303550-65303569 | Msa0465050:CDS | 45.0% | |
| GTGAAATGGCCTTCAACAAG+AGG | - | chr3_3:65303564-65303583 | Msa0465050:CDS | 45.0% | |
| CAACAAGAGGGTTGTCTATG+AGG | - | chr3_3:65303577-65303596 | Msa0465050:CDS | 45.0% | |
| TATGAGGAGGATGCGATTGA+AGG | - | chr3_3:65303593-65303612 | Msa0465050:CDS | 45.0% | |
| TCTCAACGATTTCAGGGTTG+TGG | + | chr3_3:65303640-65303659 | None:intergenic | 45.0% | |
| ACAACCCTGAAATCGTTGAG+AGG | - | chr3_3:65303639-65303658 | Msa0465050:CDS | 45.0% | |
| CAACCCTGAAATCGTTGAGA+GGG | - | chr3_3:65303640-65303659 | Msa0465050:CDS | 45.0% | |
| CAACCCTCTCAACGATTTCA+GGG | + | chr3_3:65303646-65303665 | None:intergenic | 45.0% | |
| TCAACCCTCTCAACGATTTC+AGG | + | chr3_3:65303647-65303666 | None:intergenic | 45.0% | |
| AATCGTTGAGAGGGTTGAAG+TGG | - | chr3_3:65303649-65303668 | Msa0465050:CDS | 45.0% | |
| GGAATATGAACGTGTACCTG+AGG | - | chr3_3:65303673-65303692 | Msa0465050:CDS | 45.0% | |
| ATGAACGTGTACCTGAGGTT+AGG | - | chr3_3:65303678-65303697 | Msa0465050:CDS | 45.0% | |
| TGGTCAAGTGATCTACGAAG+AGG | - | chr3_3:65303709-65303728 | Msa0465050:CDS | 45.0% | |
| CCTTCGTGGGTAATGTTGAT+TGG | + | chr3_3:65303750-65303769 | None:intergenic | 45.0% | |
| CCAATCAACATTACCCACGA+AGG | - | chr3_3:65303747-65303766 | Msa0465050:CDS | 45.0% | |
| AACATTACCCACGAAGGAAC+AGG | - | chr3_3:65303753-65303772 | Msa0465050:CDS | 45.0% | |
| CATTTGACCTGTTCCTTCGT+GGG | + | chr3_3:65303763-65303782 | None:intergenic | 45.0% | |
| ACAGGTCAAATGGTCACTCA+TGG | - | chr3_3:65303771-65303790 | Msa0465050:CDS | 45.0% | |
| CAAGAGGGTTGTCTATGAGG+AGG | - | chr3_3:65303580-65303599 | Msa0465050:CDS | 50.0% | |
| CAACGATTTCAGGGTTGTGG+TGG | + | chr3_3:65303637-65303656 | None:intergenic | 50.0% | |
| GTACCTGAGGTTAGGCCTTA+TGG | - | chr3_3:65303686-65303705 | Msa0465050:CDS | 50.0% | |
| AGTGATCTACGAAGAGGACG+TGG | - | chr3_3:65303715-65303734 | Msa0465050:CDS | 50.0% | |
| CCATTTGACCTGTTCCTTCG+TGG | + | chr3_3:65303764-65303783 | None:intergenic | 50.0% | |
| CCACGAAGGAACAGGTCAAA+TGG | - | chr3_3:65303761-65303780 | Msa0465050:CDS | 50.0% | |
| !! | GGGTAGCGAGAGTATTCGCT+AGG | + | chr3_3:65303539-65303558 | None:intergenic | 55.0% |
| GCGATTGAAGGATCACGCCA+TGG | - | chr3_3:65303605-65303624 | Msa0465050:CDS | 55.0% | |
| !! | TTTCAGGGTTGTGGTGGTGG+CGG | + | chr3_3:65303631-65303650 | None:intergenic | 55.0% |
| CGATTTCAGGGTTGTGGTGG+TGG | + | chr3_3:65303634-65303653 | None:intergenic | 55.0% | |
| CGTTGAGAGGGTTGAAGTGG+TGG | - | chr3_3:65303652-65303671 | Msa0465050:CDS | 55.0% | |
| CCACCATAAGGCCTAACCTC+AGG | + | chr3_3:65303692-65303711 | None:intergenic | 55.0% | |
| ! | CCTGAGGTTAGGCCTTATGG+TGG | - | chr3_3:65303689-65303708 | Msa0465050:CDS | 55.0% |
| !! | GGTTGTGGTGGTGGCGGCCA+TGG | + | chr3_3:65303625-65303644 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 65303485 | 65303811 | 65303485 | ID=Msa0465050;Name=Msa0465050 |
| chr3_3 | mRNA | 65303485 | 65303811 | 65303485 | ID=Msa0465050-mRNA-1;Parent=Msa0465050;Name=Msa0465050-mRNA-1;_AED=0.27;_eAED=0.27;_QI=0|-1|0|1|-1|1|1|0|108 |
| chr3_3 | exon | 65303485 | 65303811 | 65303485 | ID=Msa0465050-mRNA-1:exon:14543;Parent=Msa0465050-mRNA-1 |
| chr3_3 | CDS | 65303485 | 65303811 | 65303485 | ID=Msa0465050-mRNA-1:cds;Parent=Msa0465050-mRNA-1 |
| Gene Sequence |
| Protein sequence |
