Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 891
Aptamer sequence: ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT
Target unique ID: CRL-2222
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_805 | Ⅲ.1 | Cell | YPEN-1 | N/A | 50 mM Tris-HCl (pH 7.4), 5 mM KCl, 100 mM NaCl, 1 mM MgCl2, and 0.1% NaN3 with 1 ug/uL yeast tRNA | 11279054 |
Structure information of aptamer
| Aptamer Sequence: | ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT |
| 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_805 | Description | Ⅲ.1 |
| Aptamer chemistry | DNA | Length | 96 nt |
| GC content | 39.6% | Molecular weight | 29,854.14 Da |
| Molarity of 1 μg/μl solution | 33.50 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT | ||
| Applications | Binding to rat brain tumor microvessels | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | CRL-2222 | Cell name | YPEN-1 |
| Category | Animal cells | Organism | Rattus norvegicus, rat |
| Product type | N/A | Cell type | N/A |
| Morphology | epithelial | Tissue | Prostate; Endothelium |
| Disease | Normal | Product format | Frozen |
| Antigen expression | N/A | Genes expressed | N/A |
| Cell description | N/A |
|
|
| Application(s) | N/A | ||
Activity data
 |
Interaction ID | 891 |
| Target type | Cell | |
| Target unique ID | CRL-2222 | |
| Activity | N/A | |
| Binding Conditions/Buffer | 50 mM Tris-HCl (pH 7.4), 5 mM KCl, 100 mM NaCl, 1 mM MgCl2, and 0.1% NaN3 with 1 ug/uL yeast tRNA |
|
| Assay | Cell binding of FITC-18C modified aptamers |
|
| PubMed ID | 11279054 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_626 | DNA | ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT | |
| Apta_626 | DNA | ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT | |
| Apta_628 | DNA | ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT | |
| Apta_628 | DNA | ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT | |
| Apta_625 | DNA | ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT | |
| Apta_625 | DNA | ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT | |
| Apta_627 | DNA | ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT | |
| Apta_627 | DNA | ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT | |
| Apta_349 | DNA | ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT | |
| Apta_727 | DNA | ATACCAGCTTATTCAATTAGTCACACTTAGAGTTCTAACTGCTGCGCCGCCGGGAAAATACTGTACGGTTAGATAGTAAGTGCAATCT | |
| Apta_450 | DNA | ATACCAGCTTATTCAATTACATGTCCTGAAGGGGAATAATATACAGCTTTGGGTGGGTAGATAGTAAGTGCAATCT | |
| Apta_1015 | DNA | ATACCAGCTTATTCAATTGACCCGTTTCGTTCCCTCTGGGAAGTTTAGCCCAGTTGCCTGGGCGATACCAAGATAGTAAGTGCAATCT | |
| Apta_1016 | DNA | ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT | |
| Apta_451 | DNA | ATACCAGCTTATTCAATTGAGTAAGAGTGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCAATCT | |
| Apta_823 | DNA | GGGATACCAGCTTATTCAATTTGATTCCATCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAAGTGCAATCT | |
| Apta_452 | DNA | ATACCAGCTTATTCAATTGAAGAGTATAAAAAGAGTGATTATCTTTTGTAGGTTTTTTAGATAGTAAGTGCAATCT | |
| Apta_354 | DNA | ATACCAGCTTATTCAATTCTATACTCCACTTTGCTATTTCTCGGTTCCTTCACGCGCCGATCGCAGGCTGATGAATTGAGATAGTAAGTGCAATCT | |
| Apta_582 | DNA | GTACCAGCTTATTCAATTGGGCGAAGGAACATACGGCAGTTTATGGCCGCTATCGAGATAGACTATCATCTCAACGTCTTCTAGATAGTATGTTCATCAG | |
| Apta_792 | DNA | ATACCAGCTTATTCAATTCCCAAATTGCCACCACTTACAGCATGATAACATACTACATCTTTTCATCAAGATAGTAAGTGCAATCT | |
| Apta_1217 | DNA | ATACGAGCTTGTTCAATACGAAGGGATGCCGTTTGGGCCCAAGTTCGGCATAGTGTGGTGATAGTAAGAGCAATC |
DEV TOOL
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