Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 858
Aptamer sequence: GAATTCAGTCGGACAGCGCGGTGTTGGTGGCGGGGGTGGTTGGGGGATTTGGCTGTCCTGAGTGATGGACGAATATCGTCTCCC
Target unique ID: HTB-15
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_775 | GBM34 | Cell | human glioblastoma cell line U118-MG | 19 nM | 25 μM glucose 4 μM yeast tRNA 15 μM BSA 5 mM MgCl2 in PBS (pH = 7.4) 1 hour incubation with cells | 23056171 |
Structure information of aptamer
| Aptamer Sequence: | GAATTCAGTCGGACAGCGCGGTGTTGGTGGCGGGGGTGGTTGGGGGATTTGGCTGTCCTGAGTGATGGACGAATATCGTCTCCC |
| 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_775 | Description | GBM34 |
| Aptamer chemistry | DNA | Length | 84 nt |
| GC content | 59.5% | Molecular weight | 26,248.70 Da |
| Molarity of 1 μg/μl solution | 38.10 μM | Number of G-quadruplexes | 2 |
| G-Score | 21 | Function | Target detection |
| Sequence | GAATTCAGTCGGACAGCGCGGTGTTGGTGGCGGGGGTGGTTGGGGGATTTGGCTGTCCTGAGTGATGGACGAATATCGTCTCCC | ||
| Applications | Early detection, Targeted therapy, and guided surgery of glioblastoma leading to effective treatment of glioblastoma | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | HTB-15 | Cell name | human glioblastoma cell line U118-MG |
| Category | Human cells | Organism | Homo sapiens, human |
| Product type | N/A | Cell type | N/A |
| Morphology | mixed | Tissue | Brain |
| Disease | Glioblastoma; Grade IV | Product format | Frozen |
| Antigen expression | Blood Type A, Rh+; HLA Aw24, A28, B12, Bw47 | Genes expressed | N/A |
| Cell description | U-118 MG is a cell line exhibiting mixed morphology that was isolated in 1966 from malignant gliomas from a 50-year-old, male with Grade IV glioblastoma. |
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|
| Application(s) | 3D cell culture; Neuroscience | ||
Activity data
|
No relevant experimental diagram |
Interaction ID | 858 |
| Target type | Cell | |
| Target unique ID | HTB-15 | |
| Activity | 19 nM | |
| Binding Conditions/Buffer | 25 μM glucose 4 μM yeast tRNA 15 μM BSA 5 mM MgCl2 in PBS (pH = 7.4) 1 hour incubation with cells |
|
| Assay | N/A |
|
| PubMed ID | 23056171 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_772 | DNA | GAATTCAGTCGGACAGCGCGGTGTTGGTGGTGGGGTGGTTTGGGAATCTGTTCGGCTGGAGATGGACGAATATCGTCTCCC | |
| Apta_773 | DNA | GAATTCAGTCGGACAGCGGTGGTGCTTGTGTATGGGGGTGGTTGGTGGGTTTTATGCTGCTGGATGGACGAATATCGTCTCCC | |
| Apta_769 | DNA | GAATTCAGTCGGACAGCGAGTTGTTGTTAGGGTGTTGGGTTGGGGTTTTAGGGTCCCTGTCGTCGATGGACGAATATCGTCTCCC | |
| Apta_1183 | DNA | GAATTCAGTCGGACAGCGGCGTGAGTCTTTTGCGGTGGCTCGGGTTCGAATATCTACGACCTTGATGGACGAATATCGTCTCCC | |
| Apta_771 | DNA | GAATTCCGTCGGACAGCGGTATGCATGGGAGGTTCTGGAGGGGGTGGGTTGGCGTGCGTTCCAGATGGACGAATATCGTCTCCC | |
| Apta_767 | DNA | GAATTCAGTCGGACAGCGACGGTGGGAGCCCCAAATAATTCTTGCGATTATTAGTGTAAGCGGATGGACGAATATCGTCTCCC | |
| Apta_1184 | DNA | GAATTCAGTCGGACAGCGTAATCCCTTGTGTTTGACGTTCGAAGATTATTTCTATCTTTTAGGATGGACGAATATCGTCTCCC | |
| Apta_768 | DNA | GAATTCAGTCGGACAGCGGCACTTGCGACACGTTTGTCGGGTAAATGCGTGTATTTTCTTTTCGATGGACGAATATCGTCTCCC | |
| Apta_1180 | DNA | GAATTCAGTCGGACAGCGCAATTGTGGTTCTTACCCTATCCCTTGTGTTTGGCGTTCGTTGCGATGGACGAATATCGTCTCCC | |
| Apta_774 | DNA | GAATTCAGTCGGACAGCGAGGAAAATTTCGTTATTTTCGTTTCCGGGAACTCGGGCATTTAGAGATGGACGAATATCGTCTCCC | |
| Apta_1181 | DNA | GAATTCAGTCGGACAGCGTAGTAAGAATCTGTTTCTGGTCCTAGTCTTGCTTGTGTTTCCTGATGGACGAATATCGTCTCCC | |
| Apta_1182 | DNA | GAATTCAGTCGGACAGCGTCAGTCGTCCCTTTATGCTTGGTGCTCACCGTCTGAATTTCTTCAGATGGACGAATATCGTCTCCC | |
| Apta_770 | DNA | GAATTCAGTCGGACAGCGGCATTTACATTCCATGGGAAATTTCTCAAGCGGTATTTCATTTCGATGGACGAATATCGTCTCCC | |
| Apta_1179 | DNA | GAATTCAGTCGGACAGCGAAGTAGTTTTCCTTCTAACCTAAGAACCCGCGGCAGTTTAATGTAGATGGACGAATACGTCTCCC | |
| Apta_708 | DNA | CGTACGGAATTCGCTAGCGGGCGGGGGTGCTGGGGGAATGGAGTGCTGCGTGCTGCGGGGATCCGAGCTCCACGTG | |
| Apta_456 | DNA | AGCTCCAGAAGATAAATTACAGGTGGGTGGGTGGGCGGTGGAATTTAGCGGCGGAGCTCTGTGTGTGTTAGGGCAACTAGGATACTATGACCCC | |
| Apta_1133 | DNA | GCCGAGATTGCACTTACTATCTAAAGAAGAGTAGTAAGAGGCGTGGGTGATTATGGGTAAGTTGTATGAGGTAATTGAATAAGCTGGTATGCGC | |
| Apta_127 | DNA | GGTATTGAGGGTCGCATCCACTGGTCGTTGTTGTCTGTTGTCTGTTATGTTGTTTCGTGATGGCTCTAACTCTCCTCT | |
| Apta_887 | DNA | ACGCTCGGATGCCACTACAGGGGGGTGGTCCTGAGGGTGGTGTGGTTGGTTTGGTTTCCTCATGGACGTGCTGGTGAC | |
| Apta_1011 | DNA | GCTGTGTGACTCCTGCAATGGTAGCGGGTAGGGGAGGGAGGGTGAATGGAGGATGTTCATGGCAGCTGTATCTTGTCTCC |
DEV TOOL
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