Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 897
Aptamer sequence: ATAGGAGTCACGACGACCAGAATCTAAAAATGGGCAAAGAAACAGTGACTCGTTGAGATACTTATGTGCGTCTACCTCTTGACTAAT
Target unique ID: 17802
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_811 | A3P | Cell | Vibrio parahemolyticus | 16.88 nM | 50 mM Tris-HCl (pH 7.4), 5 mM KCl, 100 mM NaCl, and 1 mM MgCl2 | 22480209 |
Structure information of aptamer
| Aptamer Sequence: | ATAGGAGTCACGACGACCAGAATCTAAAAATGGGCAAAGAAACAGTGACTCGTTGAGATACTTATGTGCGTCTACCTCTTGACTAAT |
| The optimal secondary structure in dot-bracket notation: | .((((((....((((((.((.((((...((((((((.........)).)))))).)))).))...)).))))...))))))...... |
| The centroid secondary structure in dot-bracket notation: | ..(((((....((((((..(.((((...((((((((.........)).)))))).)))).)....)).))))...)))))....... |
The MFE structure
The Centroid structure
The mountain plot representation
Aptamer information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Aptamer ID | Apta_811 | Description | A3P |
| Aptamer chemistry | DNA | Length | 87 nt |
| GC content | 41.4% | Molecular weight | 26,893.30 Da |
| Molarity of 1 μg/μl solution | 37.18 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Target recognition |
| Sequence | ATAGGAGTCACGACGACCAGAATCTAAAAATGGGCAAAGAAACAGTGACTCGTTGAGATACTTATGTGCGTCTACCTCTTGACTAAT | ||
| Applications | Recognition of Vibrio parahemolyticus | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | 17802 | Cell name | Vibrio parahemolyticus |
| Category | Bacteria | Organism | N/A |
| Product type | N/A | Cell type | N/A |
| Morphology | N/A | Tissue | N/A |
| Disease | N/A | Product format | Freeze-dried |
| Antigen expression | N/A | Genes expressed | N/A |
| Cell description | N/A |
|
|
| Application(s) | Bioinformatics; Enteric disease research; Infectious disease research | ||
Activity data
 |
Interaction ID | 897 |
| Target type | Cell | |
| Target unique ID | 17802 | |
| Activity | 16.88 nM | |
| Binding Conditions/Buffer | 50 mM Tris-HCl (pH 7.4), 5 mM KCl, 100 mM NaCl, and 1 mM MgCl2 |
|
| Assay | Binding saturation curve of aptamer A3P to V. parahemolyticus |
|
| PubMed ID | 22480209 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_812 | DNA | ATAGGAGTCACGACGACCAGAATAGAGATATGACAGCGGGGAAGGTTAAGAGGCGCTAGGAGTATGTGCGTCTACCTCTTGACTAAT | |
| Apta_996 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_998 | DNA | ATAGGAGTCGACCGACCAGACCAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1000 | DNA | ATAGGAGTCGACCGACCAGAACCGTTCCCATACTTCTCCAGCGATACTTAGTGCGTCTACATCTAGACTC | |
| Apta_1001 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1001 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1006 | DNA | ATAGGAGTCGACCGACCAGAACTTGTCTTAGGAGGTTTACGGTGGGAATAGTGCGTCTACATCTAGACTC | |
| Apta_1009 | DNA | ATAGGAGTCGACCGACCAGACCAACCCTACGCTCGTACCAACCAGATGACCTACGTGGCGTCTACATCTAGACTC | |
| Apta_1010 | DNA | ATAGGAGTCGACCGACCAGACCGACCCTCGTCGTACCAACTGATGACCTAGTGGCGTCTACATCTAGACTC | |
| Apta_1008 | DNA | ATAGGAGTCGACCGACCAGACCATTCCCACGCCAAGACCAATTTTCCCTGTGCGTCTACATCTAGACTC | |
| Apta_1004 | DNA | ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCACTGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_896 | DNA | ATACGGGAGCCAACACCATAAGTCTAAAAAACTGGGAGTAAACACAATGTGTATAGAGCAGGTGTGACGGAT | |
| Apta_898 | DNA | ATACGGGAGCCAACACCAACAAAACTAGCAAATTAGAGCCGTATCGGAGCCTATAGAGCAGGTGTGACGGAT | |
| Apta_904 | DNA | ATACGGGAGCCAACACCAGACGGTAAATAAAGTCAGTATCGAGTACTCTATTCGAGAGCAGGTGTGACGGAT | |
| Apta_907 | DNA | ATACGGGAGCCAACACCACAACAAGATAAAGTATCAATCTGGTTGACGGACGTGAGAGCAGGTGTGACGGAT | |
| Apta_999 | DNA | ATAGGAGTCGACCGACCAGAGGACCCCGCTATCTAATTTATAGGCAATAAGTGCGTCTACATCTAGACTC | |
| Apta_1005 | DNA | ATAGGAGTCGACCGACCAGACCCGACCTCTCCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_1007 | DNA | ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_533 | DNA | ATACGGGAGCCAACACCAAAGTAAGATCATCACCCGGACGCGGACATAATAGGAGAGCAGGTGTGACGGAT | |
| Apta_533 | DNA | ATACGGGAGCCAACACCAAAGTAAGATCATCACCCGGACGCGGACATAATAGGAGAGCAGGTGTGACGGAT |
DEV TOOL
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