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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528130 | RHN75755.1 | 77.586 | 174 | 35 | 1 | 1 | 170 | 1 | 174 | 8.35e-88 | 265 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528130 | A0A396JHB0 | 77.586 | 174 | 35 | 1 | 1 | 170 | 1 | 174 | 3.99e-88 | 265 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0528130 | Msa0887620 | 0.823048 | 1.707873e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528130 | MtrunA17_Chr2g0324691 | 77.586 | 174 | 35 | 1 | 1 | 170 | 1 | 174 | 7.68e-92 | 265 |
| Msa0528130 | MtrunA17_Chr2g0324581 | 59.524 | 168 | 65 | 2 | 3 | 170 | 21 | 185 | 1.49e-58 | 187 |
| Msa0528130 | MtrunA17_Chr2g0324661 | 60.000 | 170 | 47 | 3 | 1 | 170 | 1 | 149 | 4.47e-55 | 177 |
| Msa0528130 | MtrunA17_Chr2g0324591 | 59.884 | 172 | 54 | 4 | 1 | 162 | 1 | 167 | 8.73e-52 | 170 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 24 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCTTGATGAATTGAATTTA+AGG | 0.183074 | 4_1:-832337 | Msa0528130:CDS |
| AAGGCTATCGATGACAATTT+AGG | 0.204776 | 4_1:-832712 | Msa0528130:CDS |
| GTAGAATGGATGAACAAATT+TGG | 0.265621 | 4_1:+832681 | None:intergenic |
| CCTTAAGCACTTCTAGTGAT+TGG | 0.326958 | 4_1:+832070 | None:intergenic |
| AGGCTATCGATGACAATTTA+GGG | 0.367222 | 4_1:-832711 | Msa0528130:CDS |
| ATCTAAATTCTGTGTTGAAT+CGG | 0.392713 | 4_1:-832433 | Msa0528130:CDS |
| AGGAGTATTAAAGAAGCAAA+TGG | 0.395628 | 4_1:-832317 | Msa0528130:CDS |
| CCAATCACTAGAAGTGCTTA+AGG | 0.405041 | 4_1:-832070 | Msa0528130:CDS |
| GATACTAAGAGGTTTATATA+TGG | 0.413814 | 4_1:-832360 | Msa0528130:CDS |
| GCTACATGGGAGCAAAAGTT+TGG | 0.422721 | 4_1:-832157 | Msa0528130:CDS |
| TTGAATTATTTGAAGCTACA+TGG | 0.443340 | 4_1:-832171 | Msa0528130:CDS |
| AGTAGAGATAAGATACTAAG+AGG | 0.477403 | 4_1:-832371 | Msa0528130:CDS |
| GATATTGATTCTGGATCTGT+TGG | 0.481045 | 4_1:+832643 | None:intergenic |
| ATGGCATCGAAGACTCTGTA+TGG | 0.503477 | 4_1:-832396 | Msa0528130:CDS |
| ACTAGAAGTGCTTAAGGAAA+CGG | 0.507884 | 4_1:-832064 | Msa0528130:CDS |
| AGAAGCAAATGGAGGAAGCT+TGG | 0.509451 | 4_1:-832306 | Msa0528130:CDS |
| GAAAGCTTGACAAAGTAGAA+TGG | 0.522169 | 4_1:+832667 | None:intergenic |
| TGAATTATTTGAAGCTACAT+GGG | 0.531515 | 4_1:-832170 | Msa0528130:CDS |
| AGTATTAAAGAAGCAAATGG+AGG | 0.556495 | 4_1:-832314 | Msa0528130:CDS |
| ATCGGTTAAAATTTCCACAA+TGG | 0.561399 | 4_1:-832415 | Msa0528130:CDS |
| TGGGAGCAAAAGTTTGGCTG+AGG | 0.595708 | 4_1:-832151 | Msa0528130:CDS |
| AGCAAATGGAGGAAGCTTGG+AGG | 0.622682 | 4_1:-832303 | Msa0528130:CDS |
| CAGAGTCTTCGATGCCATTG+TGG | 0.633070 | 4_1:+832401 | None:intergenic |
| CATGGAGAATAAGAAAACAA+AGG | 0.640790 | 4_1:-832731 | Msa0528130:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCAATATCAAAAATAAAAA+AGG | - | chr4_1:832157-832176 | Msa0528130:CDS | 10.0% |
| !!! | TTTATTTTTGATATTGATTC+TGG | + | chr4_1:832155-832174 | None:intergenic | 15.0% |
| !!! | TAATATATTTTGTGTTGTTT+TGG | - | chr4_1:832569-832588 | Msa0528130:CDS | 15.0% |
| !! | AATAAAAAAGGAAGAGAAAT+TGG | - | chr4_1:832169-832188 | Msa0528130:CDS | 20.0% |
| !! | ATATTCAAATTTATCATGGA+TGG | + | chr4_1:832283-832302 | None:intergenic | 20.0% |
| !! | GTCAATATTCAAATTTATCA+TGG | + | chr4_1:832287-832306 | None:intergenic | 20.0% |
| ! | AAAAATGATCACAAAGAAAG+TGG | - | chr4_1:832226-832245 | Msa0528130:intron | 25.0% |
| ! | ATCTAAATTCTGTGTTGAAT+CGG | - | chr4_1:832353-832372 | Msa0528130:CDS | 25.0% |
| ! | GATACTAAGAGGTTTATATA+TGG | - | chr4_1:832426-832445 | Msa0528130:CDS | 25.0% |
| ! | CTCTTGATGAATTGAATTTA+AGG | - | chr4_1:832449-832468 | Msa0528130:CDS | 25.0% |
| !! | TTGAATTATTTGAAGCTACA+TGG | - | chr4_1:832615-832634 | Msa0528130:CDS | 25.0% |
| !! | TGAATTATTTGAAGCTACAT+GGG | - | chr4_1:832616-832635 | Msa0528130:CDS | 25.0% |
| GTAGAATGGATGAACAAATT+TGG | + | chr4_1:832108-832127 | None:intergenic | 30.0% | |
| ATCGGTTAAAATTTCCACAA+TGG | - | chr4_1:832371-832390 | Msa0528130:CDS | 30.0% | |
| AGTAGAGATAAGATACTAAG+AGG | - | chr4_1:832415-832434 | Msa0528130:CDS | 30.0% | |
| !! | AGGAGTATTAAAGAAGCAAA+TGG | - | chr4_1:832469-832488 | Msa0528130:intron | 30.0% |
| AGTATTAAAGAAGCAAATGG+AGG | - | chr4_1:832472-832491 | Msa0528130:intron | 30.0% | |
| AAGGCTATCGATGACAATTT+AGG | - | chr4_1:832074-832093 | Msa0528130:CDS | 35.0% | |
| AGGCTATCGATGACAATTTA+GGG | - | chr4_1:832075-832094 | Msa0528130:CDS | 35.0% | |
| GAAAGCTTGACAAAGTAGAA+TGG | + | chr4_1:832122-832141 | None:intergenic | 35.0% | |
| !! | GATATTGATTCTGGATCTGT+TGG | + | chr4_1:832146-832165 | None:intergenic | 35.0% |
| !! | ACTAGAAGTGCTTAAGGAAA+CGG | - | chr4_1:832722-832741 | Msa0528130:CDS | 35.0% |
| CCTTAAGCACTTCTAGTGAT+TGG | + | chr4_1:832719-832738 | None:intergenic | 40.0% | |
| !! | CCAATCACTAGAAGTGCTTA+AGG | - | chr4_1:832716-832735 | Msa0528130:CDS | 40.0% |
| ! | ATGGCATCGAAGACTCTGTA+TGG | - | chr4_1:832390-832409 | Msa0528130:CDS | 45.0% |
| AGAAGCAAATGGAGGAAGCT+TGG | - | chr4_1:832480-832499 | Msa0528130:intron | 45.0% | |
| GCTACATGGGAGCAAAAGTT+TGG | - | chr4_1:832629-832648 | Msa0528130:CDS | 45.0% | |
| CAGAGTCTTCGATGCCATTG+TGG | + | chr4_1:832388-832407 | None:intergenic | 50.0% | |
| AGCAAATGGAGGAAGCTTGG+AGG | - | chr4_1:832483-832502 | Msa0528130:intron | 50.0% | |
| TGGGAGCAAAAGTTTGGCTG+AGG | - | chr4_1:832635-832654 | Msa0528130:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 832056 | 832752 | 832056 | ID=Msa0528130;Name=Msa0528130 |
| chr4_1 | mRNA | 832056 | 832752 | 832056 | ID=Msa0528130-mRNA-1;Parent=Msa0528130;Name=Msa0528130-mRNA-1;_AED=0.44;_eAED=0.44;_QI=0|0|0|1|1|1|3|0|171 |
| chr4_1 | exon | 832561 | 832752 | 832561 | ID=Msa0528130-mRNA-1:exon:233;Parent=Msa0528130-mRNA-1 |
| chr4_1 | exon | 832286 | 832468 | 832286 | ID=Msa0528130-mRNA-1:exon:232;Parent=Msa0528130-mRNA-1 |
| chr4_1 | exon | 832056 | 832196 | 832056 | ID=Msa0528130-mRNA-1:exon:231;Parent=Msa0528130-mRNA-1 |
| chr4_1 | CDS | 832561 | 832752 | 832561 | ID=Msa0528130-mRNA-1:cds;Parent=Msa0528130-mRNA-1 |
| chr4_1 | CDS | 832286 | 832468 | 832286 | ID=Msa0528130-mRNA-1:cds;Parent=Msa0528130-mRNA-1 |
| chr4_1 | CDS | 832056 | 832196 | 832056 | ID=Msa0528130-mRNA-1:cds;Parent=Msa0528130-mRNA-1 |
| Gene Sequence |
| Protein sequence |
