Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 884
Aptamer sequence: AAGGAGCAGCGTGGAGGATATACACCGTCATCAGAGGGAGCATCTCTAGTCAGGACTGTGATGAATTAGGGTGTGTCGTCGTGGT
Target unique ID: CRM-HTB-26
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_800 | M3 | Cell | MDA-MB-231 cells | 45.6 nM | PBS containing 5 mM MgCl2, 4.5 g/L glucose, 1 mg/mL BSA, and 0.1 mg mL salmon sperm DNA | 30098503 |
Structure information of aptamer
| Aptamer Sequence: | AAGGAGCAGCGTGGAGGATATACACCGTCATCAGAGGGAGCATCTCTAGTCAGGACTGTGATGAATTAGGGTGTGTCGTCGTGGT |
| 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_800 | Description | M3 |
| Aptamer chemistry | DNA | Length | 85 nt |
| GC content | 51.8% | Molecular weight | 26,523.97 Da |
| Molarity of 1 μg/μl solution | 37.70 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | AAGGAGCAGCGTGGAGGATATACACCGTCATCAGAGGGAGCATCTCTAGTCAGGACTGTGATGAATTAGGGTGTGTCGTCGTGGT | ||
| Applications | Against several other types of metastatic cancer cells | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | CRM-HTB-26 | Cell name | MDA-MB-231 cells |
| Category | Human cells | Organism | Homo sapiens, human |
| Product type | Certified reference material | Cell type | epithelial cell |
| Morphology | epithelial | Tissue | Breast; Mammary gland |
| Disease | Adenocarcinoma | Product format | Frozen |
| Antigen expression | N/A | Genes expressed | N/A |
| Cell description | N/A |
|
|
| Application(s) | Assay development | ||
Activity data
 |
Interaction ID | 884 |
| Target type | Cell | |
| Target unique ID | CRM-HTB-26 | |
| Activity | 45.6 nM | |
| Binding Conditions/Buffer | PBS containing 5 mM MgCl2, 4.5 g/L glucose, 1 mg/mL BSA, and 0.1 mg mL salmon sperm DNA |
|
| Assay | Binding curve of aptamer M3 with MDA-MB-231 cells |
|
| PubMed ID | 30098503 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_732 | DNA | AAGGAGCAGCGTGGAGGATAGCTGTCATCGGCTTATGTGCTTTCCAGGGTCCGTGCTGTCCGTTGTTAGGGTGTGTCGTCGTGGT | |
| Apta_731 | DNA | AAGGAGCAGCGTGGAGGATACTCTAATTGCCGTATAAGGTCAGGGGGTTGGTTGGTTCCTAGTGCTTAGGGTGTGTCGTCGTGGT | |
| Apta_907 | DNA | ATACGGGAGCCAACACCACAACAAGATAAAGTATCAATCTGGTTGACGGACGTGAGAGCAGGTGTGACGGAT | |
| Apta_1175 | DNA | ATGAGAGCGTCGGTGTGGTATCCTACTCGTGATATCGGTGTTTATGGTGTCTGTCTTCATGTAGGAGGGTGCGGAAGTA | |
| Apta_140 | DNA | GGCAGGAAGACAAACACGATGGGGGGGTATGATTTGATGTGGTTGTTGCATGATCGTGGTCTGTGGTGCTGT | |
| Apta_417 | DNA | GGCAGGAAGACAAACACCAGGTGAGGGAGACGACGCGAGTGTTAGATGGTAGCTGTTGGTCTGTGGTGCTGT | |
| Apta_655 | DNA | CCTGCACCTCGTCCAGCATGCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTG | |
| Apta_656 | DNA | GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTGGGGAGGTGCGGTTGC | |
| Apta_736 | DNA | ATCGTCTGCTCCGTCCAATATGATGACACCTGCATAATTTATAGTGAGTCTTGATTCACGCTGCATTTGGTGTGAGGTCGTGC | |
| Apta_740 | DNA | ATCGTCTGCTCCGTCCAATAAACCTGCATAATTTATAAGTCTAGACTGCTGCATTTGGTGTGAGGTCGTGC | |
| Apta_1103 | DNA | TACGACTCACTATAGGGATCCACCTATGGCAGATTGAGCCCAAGGGCTGTGCAGCGAATTCCCTTTAGTGAGGGTT | |
| Apta_109 | DNA | AGCAGCACAGAGGTCAGATGTGCGACCACCTGGATAGACGAGGGTAGTAAGGAGTGTGTTCCTATGCGTGCTACCGTGA | |
| Apta_109 | DNA | AGCAGCACAGAGGTCAGATGTGCGACCACCTGGATAGACGAGGGTAGTAAGGAGTGTGTTCCTATGCGTGCTACCGTGA | |
| Apta_418 | DNA | TGGCAGGAAGACAAACACATCGTCGCGGCCTTAGGAGGGGCGGACGGGGGGGGGCGTGGTCTGTGGTGCTGT | |
| Apta_663 | DNA | CACGCACAGAAGACACCTACAGGGCCAGATCACAATCGGTTAGTGAACTCGTACGGCGCG | |
| Apta_738 | DNA | ATCGTCTGCTCCGTCCAATACCTGCATATACACTTTGCATGTGGTTTGGTGTGAGGTCGTGC | |
| Apta_741 | DNA | ATCGTCTGCTCCGTCCAATAGCCTCACCCTGCATAATTTATAGACTACACTTAGGAATCGCTGCATTTGGTGTGAGGTCGTGC | |
| Apta_891 | DNA | GGAGACCGTACCATCTGTTCGTGGAAGCGCTTTGCTCGTCCATTAGCCTTGTGCTCGTGC | |
| Apta_1106 | DNA | TACGACTCACTATAGGGATCCTTCGCATCCGGCACGATGGCTAGGACACCCCGATGAATTCCCTTTAGTGAGGGTT | |
| Apta_1231 | DNA | ACCACCGGCCCGAGATAGTCTAGACCACTATGTTGTTGTGCTTACTGCTGTGTGGTGTGG |
DEV TOOL
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