Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 806
Aptamer sequence: ATCCAGAGTGACGCAGCATGCCCTAGTTACTACTACTCTTTTTAGCAAACGCCCTCGCTTTGGACACGGTGGCTTAGT
Target unique ID: CCL-240
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1293 KH1C12 Cell AML cell line (HL60) 4.5 nM 4.5 g/L glucose, 5 mM MgCl2, 0.1 mg/ml tRNA and 1mg/ml BSA, dissolved in Dulbecco's PBS with MgCl2 and CaCl2 19151784
Structure information of aptamer
Aptamer Sequence: ATCCAGAGTGACGCAGCATGCCCTAGTTACTACTACTCTTTTTAGCAAACGCCCTCGCTTTGGACACGGTGGCTTAGT
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_1293 Description KH1C12
Aptamer chemistry DNA Length 78 nt
GC content 50.0% Molecular weight 23,913.30 Da
Molarity of 1 μg/μl solution 41.82 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Target recognition
Sequence ATCCAGAGTGACGCAGCATGCCCTAGTTACTACTACTCTTTTTAGCAAACGCCCTCGCTTTGGACACGGTGGCTTAGT
Applications Molecular analysis of leukemia and its subcategories
Target information
Type Detail Type Detail
ATCC ID CCL-240 Cell name AML cell line (HL60)
Category Human cells Organism Homo sapiens, human
Product type N/A Cell type N/A
Morphology Lymphoblast-like Tissue Peripheral blood
Disease Acute promyelocytic leukemia Product format Frozen
Antigen expression N/A Genes expressed Tumor necrosis factor (TNF), also known as tumor necrosis factor alpha (TNF-alpha, TNF alpha), after stimulation with phorbol myristic acid; myc+
Cell description HL-60 cells are promyeoloblasts isolated from the peripheral blood by leukopheresis from a 36-year-old, Caucasian female with acute promyelocytic leukemia. This cell line can be used in immune disorder and immunology research.
Application(s) 3D cell culture; Immune system disorder research; Immunology
Activity data
Interaction ID 806
Target type Cell
Target unique ID CCL-240
Activity 4.5 nM
Binding Conditions/Buffer

4.5 g/L glucose, 5 mM MgCl2, 0.1 mg/ml tRNA and 1mg/ml BSA, dissolved in Dulbecco's PBS with MgCl2 and CaCl2
Assay

N/A
PubMed ID 19151784
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_786 DNA ATCCAGAGTGACGCAGCATTTGTATCCTATTTTGTTTATGTAATTGTCGTTGATCATGTGGACACGGTGGCTTAGT 71.79%
Apta_921 DNA ATCCAGAGTGACGCAGCACGAGCCAGACATCTCACACCTGTTGCATATACATTTTGCATGGACACGGTGGCTTAGT 71.79%
Apta_922 DNA ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT 70.51%
Apta_725 DNA ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT 70.37%
Apta_1089 DNA ATCCAGAGTGACGCAGCAATTACCGATGGCTTGTTTGTAATGTAGGGTTCCGTCGGATTGGACACGGTGGCTTAGT 69.23%
Apta_784 DNA ATCCAGAGTGACGCAGCATTTTGACGCTTTATCCTTTTCTTATGGCGGGATAGTTTCGTGGACACGGTGGCTTAGT 67.95%
Apta_787 DNA ATCCAGAGTGACGCAGCATTTGTTTAATATGTTTTTTAATTCCCCTTGTGGTGTGTTGTGGACACGGTGGCTTAGT 67.95%
Apta_923 DNA ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT 67.95%
Apta_1088 DNA ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT 67.95%
Apta_401 DNA ATCCAGAGTGACGCAGCAGATAAGTAGGTATCCGTTTGAAAAACTTTTCTGACCGTCCGACTATGGACACGGTGGCTTAGT 67.90%
Apta_785 DNA ATCCAGAGTGACGCAGCATGAATCTTTTCTTTTGGTTTTGATATTTATAGTTGGTGAATGGACACGGTGGCTTAGT 66.67%
Apta_1090 DNA ATCCAGAGTGACGCAGCAGGGCTTGGGTTGGGAATAAGGATGTGGGAGGCGGCGAACATGGACACGGTGGCTTAGT 66.67%
Apta_920 DNA ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA 64.10%
Apta_794 DNA ATCCAGAGTGACGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGACACGGTGGCTTAGT 61.54%
Apta_1112 DNA ATCCAGAGTGACGCAGCAGGGCACATTGTTCACACACAGATCACATTACGGAAAACACAACTACACGAAATGTCGTTGGTGGCCC 57.65%
Apta_529 DNA ATCCGTCACACCTGCTCTACACTCCGCACGATCTTTTTTAGAACGCGTACCCGTTGGTGTTGGCTCCCGTAT 56.41%
Apta_288 DNA ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT 55.13%
Apta_526 DNA ATACGGGAGCCAACACCAAGTAACACACGCGGACCAGAAATACATCCCCCCGTAGAGCAGGTGTGACGGAT 53.85%
Apta_532 DNA ATCCGTCACACCTGCTCTAACTTACACATAATTCTAGGTTACATCTTGCTCATATGGTGTTGGCTCCCGTAT 53.85%
Apta_726 DNA TACCAGTGCGATGCTCAGGCCGATGTCAACTTTTTCTAACTCACTGGTTTTGCCTGACGCATTCGGTTGAC 53.85%

ABOUT

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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