Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1026
Aptamer sequence: TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT
Target unique ID: Other-38
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_940 | QA-36 | Other | Soft-shelled turtle iridovirus (STIV) | 53.8 nM | 100 mM NaCl, 2.5 mM MgCl2, 20 mM Tris-HCl (pH 7.5) | 26419355 |
Structure information of aptamer
| Aptamer Sequence: | TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT |
| 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_940 | Description | QA-36 |
| Aptamer chemistry | DNA | Length | 50 nt |
| GC content | 68.0% | Molecular weight | 15,794.04 Da |
| Molarity of 1 μg/μl solution | 63.32 μM | Number of G-quadruplexes | 2 |
| G-Score | 20 | Function | Targeted therapy |
| Sequence | TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT | ||
| Applications | Inhibited STIV infection in vitro and in vivo, with aptamer QA-36 demonstrating the greatest protective effect against STIV and inhibiting STIV infection in a dose-dependent manne | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Target ID | Other-38 | Name | Soft-shelled turtle iridovirus (STIV) |
Activity data
 |
Interaction ID | 1026 |
| Target type | Other | |
| Target unique ID | Other-38 | |
| Activity | 53.8 nM | |
| Binding Conditions/Buffer | 100 mM NaCl, 2.5 mM MgCl2, 20 mM Tris-HCl (pH 7.5) |
|
| Assay | Affinity of STIV-selected ssDNA aptamer interactions by ELISA. STIV was incubated with increasing concentrations of 5′-biotinylated aptamer. After addition of streptavidin-HRP, the amount of STIV-aptamer complex was calculated and graphed as a function of aptamer concentration. The graph was fit to the equation Y = Bmax*X/(Kd + X) using SigmaPlot software. Results for each aptamer was presented as the mean ± SD of three independent experiments |
|
| PubMed ID | 26419355 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_1189 | DNA | GCGGGCGGGGGGAGGGCGGCCGTGGGCTGCGAGTGGGAGG | |
| Apta_616 | DNA | GGTGCGGGTAGGGATGAGGGCGGGTCGGGTTGAGTGTGAGCTTAGGGGtGGCGGATCTAC | |
| Apta_77 | DNA | GGTGTGGGCGACATGGGGGTTGGTGGTGTAGGAGCGCCAT | |
| Apta_565 | DNA | GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG | |
| Apta_691 | DNA | CGACGCGCGTTGGTGGTGGATGGTGTGTTACACGTGTTGT | |
| Apta_748 | DNA | AGCTTGAGGGTGGGCGGGTGGACGCGGTAGTGGTATATAGGTCGG | |
| Apta_830 | DNA | GACGGTGGCAGGGAAAGGGGTCGGGCATATGGCGGAGGGG | |
| Apta_1188 | DNA | CGGGCGGGGCGTGGGGTGTTGGAGTGGAGGGCGGGGCGGC | |
| Apta_1258 | DNA | GGCGAAGGAGTCATGTAGGTGTGGTCGAGACCGCTGTGCT | |
| Apta_1261 | DNA | GGGCGGACGCTAGGTGGTGATGCTGTGCTACACGTGTTGT | |
| Apta_753 | DNA | GGGCACAGACGGAAGATGAGAATTGTGGGGCTTAGTATAGTGAGGTGCGTGT | |
| Apta_755 | DNA | GGGGAGGGAGACACAGTCATGGAGCAGTTATTAGGGTGTACCGGGTGTAGT | |
| Apta_754 | DNA | GGGCGGGGAGTAGGGAGAGGGGTTTCCATCGGCGACAGAGGAGTTATGTGTGT | |
| Apta_282 | DNA | ATCCATGGGGCGGAGATGAGGGGGAGGAGGGCGGGTACCCGGTTGAT | |
| Apta_579 | DNA | ACTGAGGGCACGGACAGGAGGGGGAGAGATGGCGTGAGGT | |
| Apta_746 | DNA | AGAGTGGGGGGGTGGGTGGATTTGACAGGTGGCATGCTGGAGAGT | |
| Apta_862 | DNA | TGTGCCAAAGAGAGTGGTGGGGGGGTGGGCGGAACTCGCG | |
| Apta_1014 | DNA | TGGGGGTTGGGTGGATAGGCTGGCGTCGGGGCAGGTCAGT | |
| Apta_1210 | DNA | GGGGAGGCAGTGTGTTGTGTCGTGTGTGTGCTTGG | |
| Apta_1257 | DNA | CGACGCACAGTCGCTGGTGCGTACCTGGTTGCCGTTGTGT |
DEV TOOL
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