Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 813
Aptamer sequence: AAGGAGCAGCGTGGAGGATACTCTAATTGCCGTATAAGGTCAGGGGGTTGGTTGGTTCCTAGTGCTTAGGGTGTGTCGTCGTGGT
Target unique ID: CCL-119
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_731 | TD08 | Cell | Ramos Cells (B-cell lymphoma cell line) | 3.26 nM | 4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS | 17530817 |
Structure information of aptamer
| Aptamer Sequence: | AAGGAGCAGCGTGGAGGATACTCTAATTGCCGTATAAGGTCAGGGGGTTGGTTGGTTCCTAGTGCTTAGGGTGTGTCGTCGTGGT |
| 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_731 | Description | TD08 |
| Aptamer chemistry | DNA | Length | 85 nt |
| GC content | 52.9% | Molecular weight | 26,574.95 Da |
| Molarity of 1 μg/μl solution | 37.63 μM | Number of G-quadruplexes | 2 |
| G-Score | 20 | Function | Target recognition |
| Sequence | AAGGAGCAGCGTGGAGGATACTCTAATTGCCGTATAAGGTCAGGGGGTTGGTTGGTTCCTAGTGCTTAGGGTGTGTCGTCGTGGT | ||
| Applications | Specifically recognize the target lymphoma cells mixed with normal human bone marrow aspirates | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | CCL-119 | Cell name | Ramos Cells (B-cell lymphoma cell line) |
| Category | Human cells | Organism | Homo sapiens, human |
| Product type | N/A | Cell type | T lymphoblast |
| Morphology | lymphoblast | Tissue | Peripheral blood |
| Disease | Acute lymphoblastic leukemia ALL | Product format | Frozen |
| Antigen expression | CD3; CD4; CD5; CD7; | Genes expressed | CD3; CD5; CD7; CD4 |
| Cell description | These CCRF-CEM human T lymphoblasts are isolated from the peripheral blood of a female, Caucasian 4 year old with acute lymphoblastic leukemia (ALL). The cell line can be used for immuno-oncology and immunology research. It is also a suitable transfection host. |
|
|
| Application(s) | 3D cell culture; Immune system disorder research; Immunology; Immuno-oncology | ||
Activity data
 |
Interaction ID | 813 |
| Target type | Cell | |
| Target unique ID | CCL-119 | |
| Activity | 3.26 nM | |
| Binding Conditions/Buffer | 4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS |
|
| Assay | Effects of trypsin (A) and proteinase K (B) digestion on the binding of TD08 |
|
| PubMed ID | 17530817 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_732 | DNA | AAGGAGCAGCGTGGAGGATAGCTGTCATCGGCTTATGTGCTTTCCAGGGTCCGTGCTGTCCGTTGTTAGGGTGTGTCGTCGTGGT | |
| Apta_800 | DNA | AAGGAGCAGCGTGGAGGATATACACCGTCATCAGAGGGAGCATCTCTAGTCAGGACTGTGATGAATTAGGGTGTGTCGTCGTGGT | |
| Apta_67 | DNA | AGATGCCTGTCGAGCATGCTGTTGTGGTAGGGTTAGGGATGGTAGCGGTTGTAGCTAAACTGCTTTGTCGACGGG | |
| Apta_68 | DNA | AGATGCCTGTCGAGCATGCTGTGAATAGGTAGGGTCGGATGGGCTACGGTGTAGCTAAACTGCTTTGTCGACGGG | |
| Apta_791 | DNA | ATCGTCTGCTCCGTCCAATATATCAAAGGCGAATTTTGTCAAGGTGTTAAACGATAGTCCCTACCTTTGGTGTGAGGTCGTGC | |
| Apta_1099 | DNA | ATCCATTGCCACTGACTACCAGCCGGGTGGGTGGGGGGGTTTGCTGGTATCGCATTGTGCGAAGTCAGTCGGTCGTTAGT | |
| Apta_140 | DNA | GGCAGGAAGACAAACACGATGGGGGGGTATGATTTGATGTGGTTGTTGCATGATCGTGGTCTGTGGTGCTGT | |
| Apta_223 | DNA | CATTGAGATAGCTAGTTGTAGCTGCGTCATAGGCTGGGTTGGGTCTAGTGGTTGGGTGTG | |
| Apta_417 | DNA | GGCAGGAAGACAAACACCAGGTGAGGGAGACGACGCGAGTGTTAGATGGTAGCTGTTGGTCTGTGGTGCTGT | |
| Apta_531 | DNA | ATACGGGAGCCAACACCACATCGACTTACGAATCAACGCGTTTATTATTGGTTCAGAGCAGGTGTGACGGAT | |
| Apta_832 | DNA | CCGGAGGTGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGACCGGAGGGGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGA | |
| Apta_1175 | DNA | ATGAGAGCGTCGGTGTGGTATCCTACTCGTGATATCGGTGTTTATGGTGTCTGTCTTCATGTAGGAGGGTGCGGAAGTA | |
| Apta_1231 | DNA | ACCACCGGCCCGAGATAGTCTAGACCACTATGTTGTTGTGCTTACTGCTGTGTGGTGTGG | |
| Apta_589 | DNA | GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG | |
| Apta_655 | DNA | CCTGCACCTCGTCCAGCATGCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTG | |
| Apta_656 | DNA | GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTGGGGAGGTGCGGTTGC | |
| Apta_891 | DNA | GGAGACCGTACCATCTGTTCGTGGAAGCGCTTTGCTCGTCCATTAGCCTTGTGCTCGTGC | |
| Apta_589 | DNA | GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG | |
| Apta_1174 | DNA | ATGAGAGCGTCGGTGTGGTAAGTATGATATCGGTGTTTATGGTGTCTGTCTTCATACTCTTGCTGTAGGAGGGTGCGGAAGTA | |
| Apta_802 | DNA | ATGAGAAGCGTCGGTGTGGTTAAACACGGAACGAAGGTGCAGGAAGATTTGTCGATGCGGTGCCTGAGCGGGCTGGCAAGGCGCATA |
DEV TOOL
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