Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1244
Aptamer sequence: GAATTCAGTCGGACAGCGTCAGTCGTCCCTTTATGCTTGGTGCTCACCGTCTGAATTTCTTCAGATGGACGAATATCGTCTCCC
Target unique ID: CRM-HTB-26
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1182 | LXL-9 | Cell | MDA-MB-231 cells | 2.6 nM | 4.5 g/L glucose, 5 mM MgCl2, 0.1 mg/mL yeast tRNA, and 1 mg/mL BSA in PBS, pH7.4 | 24892693 |
Structure information of aptamer
| Aptamer Sequence: | GAATTCAGTCGGACAGCGTCAGTCGTCCCTTTATGCTTGGTGCTCACCGTCTGAATTTCTTCAGATGGACGAATATCGTCTCCC |
| 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_1182 | Description | LXL-9 |
| Aptamer chemistry | DNA | Length | 84 nt |
| GC content | 50.0% | Molecular weight | 25,764.46 Da |
| Molarity of 1 μg/μl solution | 38.81 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Target detection |
| Sequence | GAATTCAGTCGGACAGCGTCAGTCGTCCCTTTATGCTTGGTGCTCACCGTCTGAATTTCTTCAGATGGACGAATATCGTCTCCC | ||
| Applications | Recognition and tissue imaging | ||
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 | 1244 |
| Target type | Cell | |
| Target unique ID | CRM-HTB-26 | |
| Activity | 2.6 nM | |
| Binding Conditions/Buffer | 4.5 g/L glucose, 5 mM MgCl2, 0.1 mg/mL yeast tRNA, and 1 mg/mL BSA in PBS, pH7.4 |
|
| Assay | Dissociation constant of selected aptamers for MDA-MB-231 |
|
| PubMed ID | 24892693 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_768 | DNA | GAATTCAGTCGGACAGCGGCACTTGCGACACGTTTGTCGGGTAAATGCGTGTATTTTCTTTTCGATGGACGAATATCGTCTCCC | |
| Apta_1181 | DNA | GAATTCAGTCGGACAGCGTAGTAAGAATCTGTTTCTGGTCCTAGTCTTGCTTGTGTTTCCTGATGGACGAATATCGTCTCCC | |
| Apta_1183 | DNA | GAATTCAGTCGGACAGCGGCGTGAGTCTTTTGCGGTGGCTCGGGTTCGAATATCTACGACCTTGATGGACGAATATCGTCTCCC | |
| Apta_770 | DNA | GAATTCAGTCGGACAGCGGCATTTACATTCCATGGGAAATTTCTCAAGCGGTATTTCATTTCGATGGACGAATATCGTCTCCC | |
| Apta_1184 | DNA | GAATTCAGTCGGACAGCGTAATCCCTTGTGTTTGACGTTCGAAGATTATTTCTATCTTTTAGGATGGACGAATATCGTCTCCC | |
| Apta_773 | DNA | GAATTCAGTCGGACAGCGGTGGTGCTTGTGTATGGGGGTGGTTGGTGGGTTTTATGCTGCTGGATGGACGAATATCGTCTCCC | |
| Apta_1179 | DNA | GAATTCAGTCGGACAGCGAAGTAGTTTTCCTTCTAACCTAAGAACCCGCGGCAGTTTAATGTAGATGGACGAATACGTCTCCC | |
| Apta_1180 | DNA | GAATTCAGTCGGACAGCGCAATTGTGGTTCTTACCCTATCCCTTGTGTTTGGCGTTCGTTGCGATGGACGAATATCGTCTCCC | |
| Apta_767 | DNA | GAATTCAGTCGGACAGCGACGGTGGGAGCCCCAAATAATTCTTGCGATTATTAGTGTAAGCGGATGGACGAATATCGTCTCCC | |
| Apta_772 | DNA | GAATTCAGTCGGACAGCGCGGTGTTGGTGGTGGGGTGGTTTGGGAATCTGTTCGGCTGGAGATGGACGAATATCGTCTCCC | |
| Apta_769 | DNA | GAATTCAGTCGGACAGCGAGTTGTTGTTAGGGTGTTGGGTTGGGGTTTTAGGGTCCCTGTCGTCGATGGACGAATATCGTCTCCC | |
| Apta_774 | DNA | GAATTCAGTCGGACAGCGAGGAAAATTTCGTTATTTTCGTTTCCGGGAACTCGGGCATTTAGAGATGGACGAATATCGTCTCCC | |
| Apta_775 | DNA | GAATTCAGTCGGACAGCGCGGTGTTGGTGGCGGGGGTGGTTGGGGGATTTGGCTGTCCTGAGTGATGGACGAATATCGTCTCCC | |
| Apta_771 | DNA | GAATTCCGTCGGACAGCGGTATGCATGGGAGGTTCTGGAGGGGGTGGGTTGGCGTGCGTTCCAGATGGACGAATATCGTCTCCC | |
| Apta_128 | DNA | GGTATTGAGGGTCGCATCCCGTAGTGTGTTCTTATTCGTGTCTGTGTGTGTTCTGTCGGATGGCTCTAACTCTCCTCT | |
| Apta_935 | DNA | GACGCTTACTCAGGTGTGACTCGTCCGTCGGTTCGCCTTGCGAGTGCACGCCGCCAGCCGTTACATAAAGTCTGCCCACTCGAAGGACGCAGATGAAGTCTC | |
| Apta_127 | DNA | GGTATTGAGGGTCGCATCCACTGGTCGTTGTTGTCTGTTGTCTGTTATGTTGTTTCGTGATGGCTCTAACTCTCCTCT | |
| Apta_726 | DNA | TACCAGTGCGATGCTCAGGCCGATGTCAACTTTTTCTAACTCACTGGTTTTGCCTGACGCATTCGGTTGAC | |
| Apta_784 | DNA | ATCCAGAGTGACGCAGCATTTTGACGCTTTATCCTTTTCTTATGGCGGGATAGTTTCGTGGACACGGTGGCTTAGT | |
| Apta_920 | DNA | ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA |
DEV TOOL
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