Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1108
Aptamer sequence: CACAGGTTCCAGGTAATACCTAAGGGTATGCTCTCGCCTATTATATGGAGCAC
Target unique ID: Other-50
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1033 | S6-1b | Other | glioma cell line SHG44 | 3.1 nM | 4.5 g/L glucose, 0.01 M PBS, 5 mM MgCl2, 0.1 mg/mL yeast tRNA, and 1 mg/mL BSA | 33030015 |
Structure information of aptamer
| Aptamer Sequence: | CACAGGTTCCAGGTAATACCTAAGGGTATGCTCTCGCCTATTATATGGAGCAC |
| 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_1033 | Description | S6-1b |
| Aptamer chemistry | DNA | Length | 53 nt |
| GC content | 47.2% | Molecular weight | 16,291.47 Da |
| Molarity of 1 μg/μl solution | 61.38 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Target recognition |
| Sequence | CACAGGTTCCAGGTAATACCTAAGGGTATGCTCTCGCCTATTATATGGAGCAC | ||
| Applications | Distinguish the molecular differences between glioma cell line SHG44 and human astrocytes | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Target ID | Other-50 | Name | glioma cell line SHG44 |
Activity data
 |
Interaction ID | 1108 |
| Target type | Other | |
| Target unique ID | Other-50 | |
| Activity | 3.1 nM | |
| Binding Conditions/Buffer | 4.5 g/L glucose, 0.01 M PBS, 5 mM MgCl2, 0.1 mg/mL yeast tRNA, and 1 mg/mL BSA |
|
| Assay | Dissociation constant of aptamer S6-1b |
|
| PubMed ID | 33030015 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_464 | DNA | GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG | |
| Apta_890 | DNA | GGCGGCCGTGAAATTTGCCAAATGCCGTCTTGGCTTTCGCCCAATGTATCCTGGGTGTTC | |
| Apta_158 | DNA | CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTG | |
| Apta_159 | DNA | GCGTGCAGCATGACCACCGATGTCACACTTAATGAGAAT | |
| Apta_339 | DNA | CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTGT | |
| Apta_982 | DNA | ATGACGGGGGTCTAGGCAAGTAATAACGGGGGCAAGCTTTTCTATCTCGTTCTAGGGTA | |
| Apta_288 | DNA | ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT | |
| Apta_1218 | DNA | CGACACCACACAGCAGTAAGCACTACAACATAGTGGTCTAGACTATCTCGGGCCGGTG | |
| Apta_76 | DNA | CAGCGCTAGGGCTTTTAGCGTAATGGGTAGGGTGGTGCGGTGCAGATATCGGAATTGGTG | |
| Apta_573 | DNA | CGTACAGTGGGCTATATTGCTGACGTAAGAGCTGCTTTCAATGCATTGGCATAGATGTCA | |
| Apta_883 | DNA | CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA | |
| Apta_1283 | DNA | TACTGATGCAGGGTAATGCTTCTGTGTTTGTTCTTCATCATTAACGGCCGCGTCTGGCGG | |
| Apta_788 | DNA | TACCAGTGCGATGCTCAGTAACTTTGAAGGAAAGGCTACAAACTCTTCCTGACGCATTCGGTTGAC | |
| Apta_336 | DNA | CATGCTTCCCCAGGGAGATGACCGGGGCGTACACCGTCGCGGCACATGTCTGAATGCGTTTAGTCTCTGTGG | |
| Apta_450 | DNA | ATACCAGCTTATTCAATTACATGTCCTGAAGGGGAATAATATACAGCTTTGGGTGGGTAGATAGTAAGTGCAATCT | |
| Apta_920 | DNA | ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA | |
| Apta_1109 | DNA | GGTATGTGTCGTTGATCTGGATATCTATGCCTAATGCTCGTAGGCGACTGTTCGGATAGTAACGTTGACCGCATAC | |
| Apta_235 | DNA | AGCAGCACAGAGGTCAGATGTGGTTCGATGCTGCAAGGTGTTGTCATTTGGCATATGTTACCTATGCGTGCTACCGTGAA | |
| Apta_7 | DNA | CCAGTCTCCCGTTTACCGCGCCTACACATGTCTGAATGCC | |
| Apta_160 | DNA | CGGTGCAGTGGATACATGCCAGCCGTAGCCATCGTGGATA |
DEV TOOL
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