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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0195460 | AES64280.1 | 92.248 | 129 | 9 | 1 | 1 | 128 | 1 | 129 | 3.68e-77 | 234 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003890 | Msa0195460 | 0.806519 | 7.907150e-50 | -8.615850e-47 |
| Msa0011960 | Msa0195460 | 0.816307 | 5.917183e-52 | -8.615850e-47 |
| Msa0017510 | Msa0195460 | 0.823669 | 1.223288e-53 | -8.615850e-47 |
| Msa0025730 | Msa0195460 | 0.833216 | 6.056871e-56 | -8.615850e-47 |
| Msa0027260 | Msa0195460 | 0.828445 | 8.955751e-55 | -8.615850e-47 |
| Msa0032090 | Msa0195460 | 0.801255 | 9.814348e-49 | -8.615850e-47 |
| Msa0032260 | Msa0195460 | 0.803015 | 4.264332e-49 | -8.615850e-47 |
| Msa0032580 | Msa0195460 | 0.825725 | 4.007627e-54 | -8.615850e-47 |
| Msa0037700 | Msa0195460 | 0.822620 | 2.148520e-53 | -8.615850e-47 |
| Msa0040690 | Msa0195460 | 0.832950 | 7.056591e-56 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0195460 | MtrunA17_Chr2g0286621 | 92.248 | 129 | 9 | 1 | 1 | 128 | 1 | 129 | 3.38e-81 | 234 |
| Msa0195460 | MtrunA17_Chr2g0286631 | 80.435 | 138 | 17 | 3 | 1 | 128 | 1 | 138 | 1.77e-57 | 174 |
Find 29 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGAATGGTTAATGTTAATT+TGG | 0.155770 | 2_1:-12300526 | Msa0195460:CDS |
| AAGGAAGATGAGAATGATAA+AGG | 0.271877 | 2_1:-12300654 | Msa0195460:CDS |
| ACCATCATTGTCACCCTCAC+AGG | 0.527345 | 2_1:+12300692 | None:intergenic |
| ACCCTGCTGCTAATTACTTT+GGG | 0.397321 | 2_1:-12300743 | Msa0195460:CDS |
| ACCTGTGAGGGTGACAATGA+TGG | 0.639274 | 2_1:-12300693 | Msa0195460:CDS |
| ACCTTTACTTGTTGATGATG+AGG | 0.506285 | 2_1:-12300556 | Msa0195460:CDS |
| AGAAGAGCATTCTATTTCCA+TGG | 0.535708 | 2_1:+12300581 | None:intergenic |
| AGGAAGATGAGAATGATAAA+GGG | 0.474639 | 2_1:-12300653 | Msa0195460:CDS |
| ATAGAGTAAAGAAGCCAATA+AGG | 0.396823 | 2_1:+12300766 | None:intergenic |
| ATGTTGATGATAAACTATTT+TGG | 0.278652 | 2_1:-12300500 | Msa0195460:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATAGAGTAAAGAAGCCAATA+AGG | + | chr2_1:12300541-12300560 | None:intergenic | 30.0% | |
| AAGGAAGATGAGAATGATAA+AGG | - | chr2_1:12300650-12300669 | Msa0195460:CDS | 30.0% | |
| AGGAAGATGAGAATGATAAA+GGG | - | chr2_1:12300651-12300670 | Msa0195460:CDS | 30.0% | |
| TGGTATGTGTAGCTTAGTTA+AGG | - | chr2_1:12300631-12300650 | Msa0195460:CDS | 35.0% | |
| TCCTCATCATCAACAAGTAA+AGG | + | chr2_1:12300752-12300771 | None:intergenic | 35.0% | |
| TGATGAGGAGGAAATAAGAA+TGG | - | chr2_1:12300763-12300782 | Msa0195460:CDS | 35.0% | |
| TACCCTGCTGCTAATTACTT+TGG | - | chr2_1:12300560-12300579 | Msa0195460:CDS | 40.0% | |
| ACCCTGCTGCTAATTACTTT+GGG | - | chr2_1:12300561-12300580 | Msa0195460:CDS | 40.0% | |
| TGCTAATTACTTTGGGCACA+AGG | - | chr2_1:12300568-12300587 | Msa0195460:CDS | 40.0% | |
| GATGAGAATGATAAAGGGTC+AGG | - | chr2_1:12300656-12300675 | Msa0195460:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 12300470 | 12300856 | 12300470 | ID=Msa0195460;Name=Msa0195460 |
| chr2_1 | mRNA | 12300470 | 12300856 | 12300470 | ID=Msa0195460-mRNA-1;Parent=Msa0195460;Name=Msa0195460-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0|-1|0|1|-1|1|1|0|128 |
| chr2_1 | exon | 12300470 | 12300856 | 12300470 | ID=Msa0195460-mRNA-1:exon:5393;Parent=Msa0195460-mRNA-1 |
| chr2_1 | CDS | 12300470 | 12300856 | 12300470 | ID=Msa0195460-mRNA-1:cds;Parent=Msa0195460-mRNA-1 |
| Gene Sequence |
>Msa0195460 ATGAATGATATGGATGTATCATGTTCATCTTTGTTGCTTATTGAGGACAGTGCAGATTCTGAAGGTGACCTTATTGGCTTCTTTACTCTATACCCTGCTGCTAATTACTTTGGGCACAAGGAAGATGATGCTGAGTCATGTACCTGTGAGGGTGACAATGATGGTATGTGTAGCTTAGTTAAGGAAGATGAGAATGATAAAGGGTCAGGTGAATTTTGCTGTTTTAGCTCTACCATGTGGTTATCAGATGCAACCATGGAAATAGAATGCTCTTCTTCACCTTTACTTGTTGATGATGAGGAGGAAATAAGAATGGTTAATGTTAATTTGGATGATGTTGATGATAAACTATTTTGGGAGATATGTATGGAAGTAGGGTACCCTTGA |
| Protein sequence |
>Msa0195460 MNDMDVSCSSLLLIEDSADSEGDLIGFFTLYPAANYFGHKEDDAESCTCEGDNDGMCSLVKEDENDKGSGEFCCFSSTMWLSDATMEIECSSSPLLVDDEEEIRMVNVNLDDVDDKLFWEICMEVGYP* |
