Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1235
Aptamer sequence: TTGACTTGCCACTGACTACCCCAGTATCTCTTCAACGCTATGGTGCATGTACTACGTATTGAAGTCAGTCGGTCGTCATC
Target unique ID: HTB-14
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1173 W5-7 Cell Cells expressing integrin a5b1 4.4 nM 4.5 g/L glucose, 5 mM MgCl₂ in Dulbecco’s PBS pH=7.4 31179688
Structure information of aptamer
Aptamer Sequence: TTGACTTGCCACTGACTACCCCAGTATCTCTTCAACGCTATGGTGCATGTACTACGTATTGAAGTCAGTCGGTCGTCATC
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_1173 Description W5-7
Aptamer chemistry DNA Length 80 nt
GC content 47.5% Molecular weight 24,496.68 Da
Molarity of 1 μg/μl solution 40.82 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Target detection
Sequence TTGACTTGCCACTGACTACCCCAGTATCTCTTCAACGCTATGGTGCATGTACTACGTATTGAAGTCAGTCGGTCGTCATC
Applications Detect glioma stem cells
Target information
Type Detail Type Detail
ATCC ID HTB-14 Cell name Cells expressing integrin a5b1
Category Human cells Organism Homo sapiens, human
Product type N/A Cell type N/A
Morphology epithelial Tissue Brain
Disease Likely Glioblastoma Product format Frozen
Antigen expression N/A Genes expressed N/A
Cell description U-87 MG is a cell line with epithelial morphology that was isolated from malignant gliomas from a male patient, likely with Glioblastoma. Use these cells in your neuroscience and immuno-oncology research.
Application(s) 3D cell culture; Neuroscience; Immuno-oncology
Activity data
Interaction ID 1235
Target type Cell
Target unique ID HTB-14
Activity 4.4 nM
Binding Conditions/Buffer

4.5 g/L glucose, 5 mM MgCl₂ in Dulbecco’s PBS pH=7.4
Assay

Dissociation constant of the aptamer W5-7 to glioma stem cells
PubMed ID 31179688
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1172 DNA GACGCCACTGACTACCCCAGTATCTCTTCAACGCGTATTGAAGTCAGTCGGTCGTCA 71.25%
Apta_1099 DNA ATCCATTGCCACTGACTACCAGCCGGGTGGGTGGGGGGGTTTGCTGGTATCGCATTGTGCGAAGTCAGTCGGTCGTTAGT 58.75%
Apta_788 DNA TACCAGTGCGATGCTCAGTAACTTTGAAGGAAAGGCTACAAACTCTTCCTGACGCATTCGGTTGAC 56.25%
Apta_664 DNA CACGCAACAACACAACATGCCCAGCGCCTGGAACATATCCTATGAGTTAGTCCGCCCACA 55.00%
Apta_403 DNA GTCTTGACTAGTTACGCCCCCAAGAACCCGCTTGCCGTGGTGACGTTGATCATGTCGTTTGGTCATTCAGTTGGCGCCTC 53.75%
Apta_404 DNA GTCTTGACTAGTTACGCCCACAAGAACCTGCTTGCCATGGTGACGCCGATCATGCTTTTTGGTCATTCAGTTGGCGCCTC 53.75%
Apta_737 DNA ATCGTCTGCTCCGTCCAATAGTGCATTGAAACTTCTGCATCCTCGTTTGGTGTGAGGTCGTGC 53.75%
Apta_738 DNA ATCGTCTGCTCCGTCCAATACCTGCATATACACTTTGCATGTGGTTTGGTGTGAGGTCGTGC 53.75%
Apta_825 DNA ATACGGGAGCCAACACCACCCGTGGCCTTCACCCAGCCAGGGACCCCGTCTCTGAGAGCAGGTGTGACGGAT 53.75%
Apta_1218 DNA CGACACCACACAGCAGTAAGCACTACAACATAGTGGTCTAGACTATCTCGGGCCGGTG 53.75%
Apta_1135 DNA GCCGAGATTGCACTTACTATCTCATCAATAAAGATTATAGGGTGAAGGTGATAGTAGGTGGTATATAGGGTAATTGAATAAGCTGGTATGCGC 52.69%
Apta_309 DNA TAGCCAAGGTAACCAGTACAAGGTGCTAAACGTAATGGCTTCGGCTTAC 52.50%
Apta_405 DNA TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG 52.50%
Apta_524 DNA ATCCGTCACACCTGCTCTGGCATTAGTATTCCATAGCCGGCCAAGTCTATGTAGTGGTGTTGGCTCCCGTAT 52.50%
Apta_807 DNA GGGTCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAA 52.50%
Apta_827 DNA ATACGGGAGCCAACACCACCCGTGGCCTTCACCCAGCCAGGGGCCCCGTCTCTGAGAGCAGGTGTGACGGAT 52.50%
Apta_902 DNA ATACGGGAGCCAACACCACCAACATTATCAGAGTATGTTACTTATAGTGGTGGCAGAGCAGGTGTGACGGAT 52.50%
Apta_921 DNA ATCCAGAGTGACGCAGCACGAGCCAGACATCTCACACCTGTTGCATATACATTTTGCATGGACACGGTGGCTTAGT 52.50%
Apta_922 DNA ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT 52.50%
Apta_1050 DNA ATCCGTCACACCTGCTCTCACGTCCGTCAACCAGATTGATACTTTATCTTGTTGTGGTGTTGGCTCCCGTAT 52.50%

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AptaDB is an online database we developed to integrate comprehensive information about aptamer.
The detail of this database is described here:

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