Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51474.t1 | XP_013458798.1 | 89.9 | 178 | 18 | 0 | 1 | 178 | 1 | 178 | 1.40E-81 | 312.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51474.t1 | Q54CI5 | 29.7 | 182 | 88 | 4 | 10 | 176 | 14 | 170 | 1.1e-10 | 68.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51474.t1 | A0A072V3W3 | 89.9 | 178 | 18 | 0 | 1 | 178 | 1 | 178 | 9.9e-82 | 312.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene51474 | MS.gene83474 | PPI |
| MS.gene51474 | MS.gene72809 | PPI |
| MS.gene51474 | MS.gene82121 | PPI |
| MS.gene51474 | MS.gene028111 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51474.t1 | MTR_3g006810 | 89.888 | 178 | 18 | 0 | 1 | 178 | 1 | 178 | 4.58e-117 | 329 |
| MS.gene51474.t1 | MTR_6g003930 | 88.764 | 178 | 20 | 0 | 1 | 178 | 1 | 178 | 1.64e-115 | 325 |
| MS.gene51474.t1 | MTR_6g003930 | 88.764 | 178 | 20 | 0 | 1 | 178 | 73 | 250 | 4.05e-114 | 324 |
| MS.gene51474.t1 | MTR_4g074580 | 77.444 | 133 | 29 | 1 | 1 | 132 | 1 | 133 | 6.88e-69 | 206 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51474.t1 | AT4G10130 | 50.000 | 176 | 81 | 2 | 1 | 176 | 1 | 169 | 6.99e-57 | 177 |
| MS.gene51474.t1 | AT4G10130 | 50.000 | 176 | 81 | 2 | 1 | 176 | 1 | 169 | 6.99e-57 | 177 |
| MS.gene51474.t1 | AT4G10130 | 50.000 | 176 | 81 | 2 | 1 | 176 | 1 | 169 | 6.99e-57 | 177 |
| MS.gene51474.t1 | AT4G10130 | 50.000 | 176 | 81 | 2 | 1 | 176 | 1 | 169 | 6.99e-57 | 177 |
| MS.gene51474.t1 | AT4G10130 | 50.000 | 176 | 81 | 2 | 1 | 176 | 1 | 169 | 6.99e-57 | 177 |
Find 30 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCGTTGGAATTGTTGAAAA+TGG | 0.215014 | 3.4:+2260488 | MS.gene51474:CDS |
| TGCAGAAGATTTAAGCTTAC+AGG | 0.223608 | 3.4:+2260389 | MS.gene51474:CDS |
| ACTATTTCCATTTCTCAATA+AGG | 0.240811 | 3.4:-2260517 | None:intergenic |
| AATGTCTTCAATAGCTTATC+AGG | 0.348669 | 3.4:-2260222 | None:intergenic |
| AAGAAATTCGTGCTAGTTAT+CGG | 0.351900 | 3.4:+2260178 | MS.gene51474:CDS |
| GCTCCTTATCATATGATAAA+CGG | 0.375961 | 3.4:-2260329 | None:intergenic |
| TCGTTGGAATTGTTGAAAAT+GGG | 0.385013 | 3.4:+2260489 | MS.gene51474:CDS |
| GGGTATTCCTTATTGAGAAA+TGG | 0.387591 | 3.4:+2260510 | MS.gene51474:CDS |
| CTCCTTATCATATGATAAAC+GGG | 0.405474 | 3.4:-2260328 | None:intergenic |
| TTATGAGGTTCTCAATGTTA+AGG | 0.412571 | 3.4:+2260140 | MS.gene51474:CDS |
| CGTACTTGTTTGATCACTGC+TGG | 0.418755 | 3.4:-2260253 | None:intergenic |
| GCTTAAATCTTCTGCAACTT+CGG | 0.425332 | 3.4:-2260382 | None:intergenic |
| AAGATCAAGGCGGGATGTCT+TGG | 0.458794 | 3.4:+2260356 | MS.gene51474:CDS |
| CATTGAGGAAACTCATTATG+AGG | 0.462336 | 3.4:+2260125 | MS.gene51474:CDS |
| CTCAATGGTGATAATTTACC+AGG | 0.470499 | 3.4:+2260549 | MS.gene51474:CDS |
| ATCCCGTTTATCATATGATA+AGG | 0.470557 | 3.4:+2260326 | MS.gene51474:CDS |
| TTCTCAAGGCTCAAAAGGCA+TGG | 0.488397 | 3.4:+2260283 | MS.gene51474:CDS |
| AGATCCACAAGGAAGAATTA+CGG | 0.504577 | 3.4:-2260574 | None:intergenic |
| CAAGGAAGAATTACGGATCC+TGG | 0.519598 | 3.4:-2260567 | None:intergenic |
| AATAGTATATCTATACTCAA+TGG | 0.536490 | 3.4:+2260534 | MS.gene51474:CDS |
| ATAAGGAGCTGCAAAGATCA+AGG | 0.544696 | 3.4:+2260343 | MS.gene51474:CDS |
| TCTTGACAATCATGACATTG+AGG | 0.551836 | 3.4:+2260110 | MS.gene51474:CDS |
| TTACTTCTCTGTCGACTCGT+TGG | 0.561601 | 3.4:+2260473 | MS.gene51474:CDS |
| TCTCAAGGCTCAAAAGGCAT+GGG | 0.563961 | 3.4:+2260284 | MS.gene51474:CDS |
| CGTTGGAATTGTTGAAAATG+GGG | 0.570368 | 3.4:+2260490 | MS.gene51474:CDS |
| GGAGCTGCAAAGATCAAGGC+GGG | 0.575943 | 3.4:+2260347 | MS.gene51474:CDS |
| AGCTCGTTTGATACTCAGCA+TGG | 0.598821 | 3.4:+2260608 | MS.gene51474:CDS |
| GGATCCGTAATTCTTCCTTG+TGG | 0.599778 | 3.4:+2260570 | MS.gene51474:CDS |
| TTTAACGAACAAGATCCACA+AGG | 0.727941 | 3.4:-2260585 | None:intergenic |
| AGGAGCTGCAAAGATCAAGG+CGG | 0.734461 | 3.4:+2260346 | MS.gene51474:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATAGTATATCTATACTCAA+TGG | + | chr3.4:2260534-2260553 | MS.gene51474:CDS | 20.0% |
| ! | ACTATTTCCATTTCTCAATA+AGG | - | chr3.4:2260520-2260539 | None:intergenic | 25.0% |
| AAGAAATTCGTGCTAGTTAT+CGG | + | chr3.4:2260178-2260197 | MS.gene51474:CDS | 30.0% | |
| AATGTCTTCAATAGCTTATC+AGG | - | chr3.4:2260225-2260244 | None:intergenic | 30.0% | |
| ATCCCGTTTATCATATGATA+AGG | + | chr3.4:2260326-2260345 | MS.gene51474:CDS | 30.0% | |
| CTCCTTATCATATGATAAAC+GGG | - | chr3.4:2260331-2260350 | None:intergenic | 30.0% | |
| GCTCCTTATCATATGATAAA+CGG | - | chr3.4:2260332-2260351 | None:intergenic | 30.0% | |
| TCGTTGGAATTGTTGAAAAT+GGG | + | chr3.4:2260489-2260508 | MS.gene51474:CDS | 30.0% | |
| TTATGAGGTTCTCAATGTTA+AGG | + | chr3.4:2260140-2260159 | MS.gene51474:CDS | 30.0% | |
| AGATCCACAAGGAAGAATTA+CGG | - | chr3.4:2260577-2260596 | None:intergenic | 35.0% | |
| CATTGAGGAAACTCATTATG+AGG | + | chr3.4:2260125-2260144 | MS.gene51474:CDS | 35.0% | |
| CGTTGGAATTGTTGAAAATG+GGG | + | chr3.4:2260490-2260509 | MS.gene51474:CDS | 35.0% | |
| CTCAATGGTGATAATTTACC+AGG | + | chr3.4:2260549-2260568 | MS.gene51474:CDS | 35.0% | |
| CTCGTTGGAATTGTTGAAAA+TGG | + | chr3.4:2260488-2260507 | MS.gene51474:CDS | 35.0% | |
| GCTTAAATCTTCTGCAACTT+CGG | - | chr3.4:2260385-2260404 | None:intergenic | 35.0% | |
| GGGTATTCCTTATTGAGAAA+TGG | + | chr3.4:2260510-2260529 | MS.gene51474:CDS | 35.0% | |
| TCTTGACAATCATGACATTG+AGG | + | chr3.4:2260110-2260129 | MS.gene51474:CDS | 35.0% | |
| TGCAGAAGATTTAAGCTTAC+AGG | + | chr3.4:2260389-2260408 | MS.gene51474:CDS | 35.0% | |
| TTTAACGAACAAGATCCACA+AGG | - | chr3.4:2260588-2260607 | None:intergenic | 35.0% | |
| ! | AAGTACGAAGAGTTTTCTCA+AGG | + | chr3.4:2260269-2260288 | MS.gene51474:CDS | 35.0% |
| ! | CTGTTTTATCAATGTCGATG+TGG | + | chr3.4:2260447-2260466 | MS.gene51474:CDS | 35.0% |
| ATAAGGAGCTGCAAAGATCA+AGG | + | chr3.4:2260343-2260362 | MS.gene51474:CDS | 40.0% | |
| ! | GAGTTTTCTCAAGGCTCAAA+AGG | + | chr3.4:2260278-2260297 | MS.gene51474:CDS | 40.0% |
| AGCTCGTTTGATACTCAGCA+TGG | + | chr3.4:2260608-2260627 | MS.gene51474:CDS | 45.0% | |
| CAAGGAAGAATTACGGATCC+TGG | - | chr3.4:2260570-2260589 | None:intergenic | 45.0% | |
| CGTACTTGTTTGATCACTGC+TGG | - | chr3.4:2260256-2260275 | None:intergenic | 45.0% | |
| GGATCCGTAATTCTTCCTTG+TGG | + | chr3.4:2260570-2260589 | MS.gene51474:CDS | 45.0% | |
| TTCTCAAGGCTCAAAAGGCA+TGG | + | chr3.4:2260283-2260302 | MS.gene51474:CDS | 45.0% | |
| ! | TCTCAAGGCTCAAAAGGCAT+GGG | + | chr3.4:2260284-2260303 | MS.gene51474:CDS | 45.0% |
| !! | TTACTTCTCTGTCGACTCGT+TGG | + | chr3.4:2260473-2260492 | MS.gene51474:CDS | 45.0% |
| AAGATCAAGGCGGGATGTCT+TGG | + | chr3.4:2260356-2260375 | MS.gene51474:CDS | 50.0% | |
| AGGAGCTGCAAAGATCAAGG+CGG | + | chr3.4:2260346-2260365 | MS.gene51474:CDS | 50.0% | |
| GGAGCTGCAAAGATCAAGGC+GGG | + | chr3.4:2260347-2260366 | MS.gene51474:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 2260105 | 2260641 | 2260105 | ID=MS.gene51474 |
| chr3.4 | mRNA | 2260105 | 2260641 | 2260105 | ID=MS.gene51474.t1;Parent=MS.gene51474 |
| chr3.4 | exon | 2260105 | 2260641 | 2260105 | ID=MS.gene51474.t1.exon1;Parent=MS.gene51474.t1 |
| chr3.4 | CDS | 2260105 | 2260641 | 2260105 | ID=cds.MS.gene51474.t1;Parent=MS.gene51474.t1 |
| Gene Sequence |
| Protein sequence |
