Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 854
Aptamer sequence: GAATTCCGTCGGACAGCGGTATGCATGGGAGGTTCTGGAGGGGGTGGGTTGGCGTGCGTTCCAGATGGACGAATATCGTCTCCC
Target unique ID: HTB-15
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_771 GBM10 Cell human glioblastoma cell line U118-MG 29 nM 25 μM glucose 4 μM yeast tRNA 15 μM BSA 5 mM MgCl2 in PBS (pH = 7.4) 1 hour incubation with cells 23056171
Structure information of aptamer
Aptamer Sequence: GAATTCCGTCGGACAGCGGTATGCATGGGAGGTTCTGGAGGGGGTGGGTTGGCGTGCGTTCCAGATGGACGAATATCGTCTCCC
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_771 Description GBM10
Aptamer chemistry DNA Length 84 nt
GC content 59.5% Molecular weight 26,186.68 Da
Molarity of 1 μg/μl solution 38.19 μM Number of G-quadruplexes 2
G-Score 21 Function Target detection
Sequence GAATTCCGTCGGACAGCGGTATGCATGGGAGGTTCTGGAGGGGGTGGGTTGGCGTGCGTTCCAGATGGACGAATATCGTCTCCC
Applications Early detection, Targeted therapy, and guided surgery of glioblastoma leading to effective treatment of glioblastoma
Target information
Type Detail Type Detail
ATCC ID HTB-15 Cell name human glioblastoma cell line U118-MG
Category Human cells Organism Homo sapiens, human
Product type N/A Cell type N/A
Morphology mixed Tissue Brain
Disease Glioblastoma; Grade IV Product format Frozen
Antigen expression Blood Type A, Rh+; HLA Aw24, A28, B12, Bw47 Genes expressed N/A
Cell description U-118 MG is a cell line exhibiting mixed morphology that was isolated in 1966 from malignant gliomas from a 50-year-old, male with Grade IV glioblastoma.
Application(s) 3D cell culture; Neuroscience
Activity data

No relevant experimental diagram

 Interaction ID 854
Target type Cell
Target unique ID HTB-15
Activity 29 nM
Binding Conditions/Buffer

25 μM glucose 4 μM yeast tRNA 15 μM BSA 5 mM MgCl2 in PBS (pH = 7.4) 1 hour incubation with cells
Assay

N/A
PubMed ID 23056171
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_773 DNA GAATTCAGTCGGACAGCGGTGGTGCTTGTGTATGGGGGTGGTTGGTGGGTTTTATGCTGCTGGATGGACGAATATCGTCTCCC 73.81%
Apta_1181 DNA GAATTCAGTCGGACAGCGTAGTAAGAATCTGTTTCTGGTCCTAGTCTTGCTTGTGTTTCCTGATGGACGAATATCGTCTCCC 72.62%
Apta_769 DNA GAATTCAGTCGGACAGCGAGTTGTTGTTAGGGTGTTGGGTTGGGGTTTTAGGGTCCCTGTCGTCGATGGACGAATATCGTCTCCC 71.76%
Apta_775 DNA GAATTCAGTCGGACAGCGCGGTGTTGGTGGCGGGGGTGGTTGGGGGATTTGGCTGTCCTGAGTGATGGACGAATATCGTCTCCC 71.43%
Apta_1180 DNA GAATTCAGTCGGACAGCGCAATTGTGGTTCTTACCCTATCCCTTGTGTTTGGCGTTCGTTGCGATGGACGAATATCGTCTCCC 71.43%
Apta_772 DNA GAATTCAGTCGGACAGCGCGGTGTTGGTGGTGGGGTGGTTTGGGAATCTGTTCGGCTGGAGATGGACGAATATCGTCTCCC 70.24%
Apta_768 DNA GAATTCAGTCGGACAGCGGCACTTGCGACACGTTTGTCGGGTAAATGCGTGTATTTTCTTTTCGATGGACGAATATCGTCTCCC 69.05%
Apta_770 DNA GAATTCAGTCGGACAGCGGCATTTACATTCCATGGGAAATTTCTCAAGCGGTATTTCATTTCGATGGACGAATATCGTCTCCC 67.86%
Apta_1183 DNA GAATTCAGTCGGACAGCGGCGTGAGTCTTTTGCGGTGGCTCGGGTTCGAATATCTACGACCTTGATGGACGAATATCGTCTCCC 66.67%
Apta_1182 DNA GAATTCAGTCGGACAGCGTCAGTCGTCCCTTTATGCTTGGTGCTCACCGTCTGAATTTCTTCAGATGGACGAATATCGTCTCCC 65.48%
Apta_1184 DNA GAATTCAGTCGGACAGCGTAATCCCTTGTGTTTGACGTTCGAAGATTATTTCTATCTTTTAGGATGGACGAATATCGTCTCCC 65.48%
Apta_767 DNA GAATTCAGTCGGACAGCGACGGTGGGAGCCCCAAATAATTCTTGCGATTATTAGTGTAAGCGGATGGACGAATATCGTCTCCC 64.29%
Apta_774 DNA GAATTCAGTCGGACAGCGAGGAAAATTTCGTTATTTTCGTTTCCGGGAACTCGGGCATTTAGAGATGGACGAATATCGTCTCCC 64.29%
Apta_1179 DNA GAATTCAGTCGGACAGCGAAGTAGTTTTCCTTCTAACCTAAGAACCCGCGGCAGTTTAATGTAGATGGACGAATACGTCTCCC 59.52%
Apta_887 DNA ACGCTCGGATGCCACTACAGGGGGGTGGTCCTGAGGGTGGTGTGGTTGGTTTGGTTTCCTCATGGACGTGCTGGTGAC 57.14%
Apta_1229 DNA CACGGGCAGAGGGATAGGTTGTTGACGGGGCTGGTGGGTGGGTGCGCTCGCGCTATCGTGG 55.95%
Apta_589 DNA GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG 54.76%
Apta_589 DNA GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG 54.76%
Apta_67 DNA AGATGCCTGTCGAGCATGCTGTTGTGGTAGGGTTAGGGATGGTAGCGGTTGTAGCTAAACTGCTTTGTCGACGGG 53.57%
Apta_794 DNA ATCCAGAGTGACGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGACACGGTGGCTTAGT 53.57%

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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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