Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 872
Aptamer sequence: TACCAGTGCGATGCTCAGTAACTTTGAAGGAAAGGCTACAAACTCTTCCTGACGCATTCGGTTGAC
Target unique ID: TIB-180
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_788 | PS1 | Cell | Hodgkin lymphoma (HL) tumor cells | 5 nM | Dulbecco's PBS with 4.5 g/L glucose and 5 mM MgCl2; Binding buffer to reduce nonspecific background binding: 1 mg/mL BSA and 0.1 mg/mL t-RNA | 24233078 |
Structure information of aptamer
| Aptamer Sequence: | TACCAGTGCGATGCTCAGTAACTTTGAAGGAAAGGCTACAAACTCTTCCTGACGCATTCGGTTGAC |
| 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_788 | Description | PS1 |
| Aptamer chemistry | DNA | Length | 66 nt |
| GC content | 47.0% | Molecular weight | 20,312.04 Da |
| Molarity of 1 μg/μl solution | 49.23 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Target recognition |
| Sequence | TACCAGTGCGATGCTCAGTAACTTTGAAGGAAAGGCTACAAACTCTTCCTGACGCATTCGGTTGAC | ||
| Applications | Detection of HL cells | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | TIB-180 | Cell name | Hodgkin lymphoma (HL) tumor cells |
| Category | Human cells | Organism | Homo sapiens, human |
| Product type | N/A | Cell type | erythroblast |
| Morphology | lymphoblast | Tissue | Bone; Marrow |
| Disease | Erythroleukemia | Product format | Frozen |
| Antigen expression | HLA A3, Aw32, Bw35; Ia+ | Genes expressed | Hemoglobin; globin (G gamma, A gamma, epsilon, eta and alpha chains); beta-2-microglobulin; glycophorin |
| Cell description | N/A |
|
|
| Application(s) | 3D cell culture; Immune system disorder research; Immunology | ||
Activity data
 |
Interaction ID | 872 |
| Target type | Cell | |
| Target unique ID | TIB-180 | |
| Activity | 5 nM | |
| Binding Conditions/Buffer | Dulbecco's PBS with 4.5 g/L glucose and 5 mM MgCl2; Binding buffer to reduce nonspecific background binding: 1 mg/mL BSA and 0.1 mg/mL t-RNA |
|
| Assay | Cell-binding affinity of aptamers was analyzed using a series dilution |
|
| PubMed ID | 24233078 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_726 | DNA | TACCAGTGCGATGCTCAGGCCGATGTCAACTTTTTCTAACTCACTGGTTTTGCCTGACGCATTCGGTTGAC | |
| Apta_1173 | DNA | TTGACTTGCCACTGACTACCCCAGTATCTCTTCAACGCTATGGTGCATGTACTACGTATTGAAGTCAGTCGGTCGTCATC | |
| Apta_309 | DNA | TAGCCAAGGTAACCAGTACAAGGTGCTAAACGTAATGGCTTCGGCTTAC | |
| Apta_991 | DNA | AGCAGTGAAGAGGCGAGAGATTTATGAGGGTAGCGTCCACATATGCCAGGATCGTGTTG | |
| Apta_1127 | DNA | TCGGGCGAGTCGTCTGCGAGGCAACAAGCTCGTAATCCGCATCGTCCTCCC | |
| Apta_309 | DNA | TAGCCAAGGTAACCAGTACAAGGTGCTAAACGTAATGGCTTCGGCTTAC | |
| Apta_107 | DNA | AGCAGCACAGAGGTCAGATGTTCATTTCAGTTGACCGATAGCATTGAGCAATGATCTATTCCTATGCGTGCTACCGTGAA | |
| Apta_107 | DNA | AGCAGCACAGAGGTCAGATGTTCATTTCAGTTGACCGATAGCATTGAGCAATGATCTATTCCTATGCGTGCTACCGTGAA | |
| Apta_173 | DNA | AGCAGCACAGAGGTCAGATGGCAGGTTTCGACGTACAATGCTATGGAGGCTTTATGATCGCCTATGCGTGCTACCGTGAA | |
| Apta_175 | DNA | AGCAGCACAGAGGTCAGATGAGGACTGTCGATAAGTATAATGGCAAGTAGCTCGATACATCCTATGCGTGCTACCGTGAA | |
| Apta_968 | DNA | TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC | |
| Apta_920 | DNA | ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA | |
| Apta_61 | DNA | AGCAGCACAGAGGTCAGATGGCAGGTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGCCCTATGCGTGCTACCGTGAA | |
| Apta_108 | DNA | AGCAGCACAGAGGTCAGATGCTTTGCCACGGCAACGTCCCAAAACTAATGGTAACTATACCCTATGCGTGCTACCGTGAA | |
| Apta_108 | DNA | AGCAGCACAGAGGTCAGATGCTTTGCCACGGCAACGTCCCAAAACTAATGGTAACTATACCCTATGCGTGCTACCGTGAA | |
| Apta_768 | DNA | GAATTCAGTCGGACAGCGGCACTTGCGACACGTTTGTCGGGTAAATGCGTGTATTTTCTTTTCGATGGACGAATATCGTCTCCC | |
| Apta_910 | DNA | TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA | |
| Apta_972 | DNA | TGACAGTACGTACTGAACTAATTTATAAGTAATTTGCTATGGTGGTATCC | |
| Apta_1045 | DNA | GGTGCTCAGGGAACTGTCTGAGGGATCAGGCTTAAGCCTGTCGAGCAGTT | |
| Apta_770 | DNA | GAATTCAGTCGGACAGCGGCATTTACATTCCATGGGAAATTTCTCAAGCGGTATTTCATTTCGATGGACGAATATCGTCTCCC |
DEV TOOL
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