Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 375
Aptamer sequence: GGCTGTTGTGAGCCTCCTCCCAGAGGGAAGACTTTAGGTTCGGTTCACGTCCCGCTTATTCTTACTCCC
Target unique ID: P24821
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_369 GBI-10 Protein TENA_HUMAN 150 nM 10 mM Tris-HCl (pH 7.5), 150 mM NaCl, 1 mM MgCl2, 1 mM CaCl2, 0.1% (wt/vol) BSA, 0.1 % (vol/vol) Triton X-100, 0.1% (vol/vol) Tween 20 14676325
Structure information of aptamer
Aptamer Sequence: GGCTGTTGTGAGCCTCCTCCCAGAGGGAAGACTTTAGGTTCGGTTCACGTCCCGCTTATTCTTACTCCC
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_369 Description GBI-10
Aptamer chemistry DNA Length 69 nt
GC content 55.1% Molecular weight 21,127.48 Da
Molarity of 1 μg/μl solution 47.33 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence GGCTGTTGTGAGCCTCCTCCCAGAGGGAAGACTTTAGGTTCGGTTCACGTCCCGCTTATTCTTACTCCC
Applications Binding to tenascin-C
Target information
Type Detail Type Detail
Uniprot ID P24821 Protein name Tenascin (TN) (Cytotactin) (GMEM) (GP 150-225) (Glioma-associated-extracellular matrix antigen) (Hexabrachion) (JI) (Myotendinous antigen) (Neuronectin) (Tenascin-C) (TN-C)
Gene name(s) TNC HXB Organism Tenascin (TN) (Cytotactin) (GMEM) (GP 150-225) (Glioma-associated-extracellular matrix antigen) (Hexabrachion) (JI) (Myotendinous antigen) (Neuronectin) (Tenascin-C) (TN-C)
Status reviewed in uniprot database Length 2201
Mass 240,853 Activity regulation N/A
Involvement in disease Deafness, autosomal dominant, 56 (DFNA56) Catalytic activity N/A
PDB ID(s)
1TEN;2RB8;2RBL;5R5T;5R5U;5R5V;5R5W;5R5X;5R5Y;5R5Z;5R60;5R61;5R62;5R63;6BRB;6QNV;
Function Extracellular matrix protein implicated in guidance of migrating neurons as well as axons during development, synaptic plasticity as well as neuronal regeneration.
Activity data
Interaction ID 375
Target type Protein
Target unique ID P24821
Activity 150 nM
Binding Conditions/Buffer

10 mM Tris-HCl (pH 7.5), 150 mM NaCl, 1 mM MgCl2, 1 mM CaCl2, 0.1% (wt/vol) BSA, 0.1 % (vol/vol) Triton X-100, 0.1% (vol/vol) Tween 20
Assay

Binding of tenascin-C and subdomains of tenascin-C to aptamer GBI-10 is shown
PubMed ID 14676325
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_509 DNA TCGCGCGAGTCGTCTGGGGGACTAGAGGACTTGTGCGGCCCCGCATCGTCCTCCC 56.52%
Apta_1127 DNA TCGGGCGAGTCGTCTGCGAGGCAACAAGCTCGTAATCCGCATCGTCCTCCC 55.07%
Apta_128 DNA GGTATTGAGGGTCGCATCCCGTAGTGTGTTCTTATTCGTGTCTGTGTGTGTTCTGTCGGATGGCTCTAACTCTCCTCT 53.85%
Apta_1125 DNA TCGGGCGAGTCGTCTGGGGAGGTCAGAACGAAAGGCCCGCATCGTCCTCCC 53.62%
Apta_1126 DNA TCGGGCGAGTCGTCTGCGGGCGGATAGACTACGACACCGCATCGTCCTCCC 53.62%
Apta_1011 DNA GCTGTGTGACTCCTGCAATGGTAGCGGGTAGGGGAGGGAGGGTGAATGGAGGATGTTCATGGCAGCTGTATCTTGTCTCC 52.50%
Apta_600 DNA GTCTCTGTGTGCGCCAGAGAACACTGGGGCAGATATGGGCCAGCACAGAATGAGGCCC 52.17%
Apta_600 DNA GTCTCTGTGTGCGCCAGAGAACACTGGGGCAGATATGGGCCAGCACAGAATGAGGCCC 52.17%
Apta_1291 DNA CGTACGGAATTCGCTAGCCCCCCGGCAGGCCACGGCTTGGGTTGGTCCCACTGCGCGTGGATCCGAGCTCCACGTG 51.32%
Apta_351 DNA TTCTCGGTTGGTCTCTGGCGGAGCGATCATCTCAGAGCATTCTTAGCGTTTTGTTCTTGTGTATGATTCGCTTTTCCC 51.28%
Apta_368 DNA GGTATTGAGGGTCGCATCTCAAAAGGGGTGATTGCTTGCACAATGACAGGGTAGGACAGATGGCTCTAACTCTCCTCT 51.28%
Apta_555 DNA TGTACCGTCTGAGCGATTCGTACGGATTGGGTTTGCACTTTACCTGCGGTGCATCGCAGCCAGTCAGTGTTAAGGAGTGC 51.25%
Apta_761 DNA AGCAGAGTTCACGACCCGATAAGGGGAAAACACATTTCGGATCTCCGTTGTCGCCCTGATACCGAGTTACATACCAATCGTCGCAG 51.16%
Apta_763 DNA AGCAGAGTTCACGACCCGATAAGGGGAAAACACATTTCGGATCTCCGTTGTCGCCCTGGTACCGAGTTACATACCAATCGTCGCAG 51.16%
Apta_764 DNA AGCAGAGTTCACGACCCGATAAGGGGAAAATACATTTCGGATCTCCGTTGTCGCCCTGATACCGAGTTACATACCAATCGTCGCAG 51.16%
Apta_765 DNA AGCAGAGTTCACGACCCGATAAGGGGAAAATACATTTCGGATCTCCGTTGTCGCCCTGGTACCGAGTTACATACCAATCGTCGCAG 51.16%
Apta_238 DNA CACACATTCCCGTCCTCGATACGTCTAGGCTTAGTGCCACTTGCTTAATC 50.72%
Apta_357 DNA ACAATGTCGCTCTCCGCCGCAGGAGCATTGTCTGTCTTTATGCTTCTCTTTTTTGTTGC 50.72%
Apta_890 DNA GGCGGCCGTGAAATTTGCCAAATGCCGTCTTGGCTTTCGCCCAATGTATCCTGGGTGTTC 50.72%
Apta_891 DNA GGAGACCGTACCATCTGTTCGTGGAAGCGCTTTGCTCGTCCATTAGCCTTGTGCTCGTGC 50.72%

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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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