Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 807
Aptamer sequence: ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT
Target unique ID: CCL-240
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_725 KHG11 Cell AML cell line (HL60) 6.1 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: ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT
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_725 Description KHG11
Aptamer chemistry DNA Length 81 nt
GC content 49.4% Molecular weight 24,912.92 Da
Molarity of 1 μg/μl solution 40.14 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Target recognition
Sequence ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT
Applications Recognize targets associated with monocytic differentiation
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 807
Target type Cell
Target unique ID CCL-240
Activity 6.1 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

Identification of potential aptamer candidates
PubMed ID 19151784
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_786 DNA ATCCAGAGTGACGCAGCATTTGTATCCTATTTTGTTTATGTAATTGTCGTTGATCATGTGGACACGGTGGCTTAGT 71.60%
Apta_921 DNA ATCCAGAGTGACGCAGCACGAGCCAGACATCTCACACCTGTTGCATATACATTTTGCATGGACACGGTGGCTTAGT 71.60%
Apta_922 DNA ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT 71.60%
Apta_923 DNA ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT 71.60%
Apta_784 DNA ATCCAGAGTGACGCAGCATTTTGACGCTTTATCCTTTTCTTATGGCGGGATAGTTTCGTGGACACGGTGGCTTAGT 70.37%
Apta_1293 DNA ATCCAGAGTGACGCAGCATGCCCTAGTTACTACTACTCTTTTTAGCAAACGCCCTCGCTTTGGACACGGTGGCTTAGT 70.37%
Apta_1088 DNA ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT 69.14%
Apta_920 DNA ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA 67.90%
Apta_1089 DNA ATCCAGAGTGACGCAGCAATTACCGATGGCTTGTTTGTAATGTAGGGTTCCGTCGGATTGGACACGGTGGCTTAGT 67.90%
Apta_401 DNA ATCCAGAGTGACGCAGCAGATAAGTAGGTATCCGTTTGAAAAACTTTTCTGACCGTCCGACTATGGACACGGTGGCTTAGT 66.67%
Apta_785 DNA ATCCAGAGTGACGCAGCATGAATCTTTTCTTTTGGTTTTGATATTTATAGTTGGTGAATGGACACGGTGGCTTAGT 66.67%
Apta_787 DNA ATCCAGAGTGACGCAGCATTTGTTTAATATGTTTTTTAATTCCCCTTGTGGTGTGTTGTGGACACGGTGGCTTAGT 66.67%
Apta_794 DNA ATCCAGAGTGACGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGACACGGTGGCTTAGT 66.67%
Apta_1090 DNA ATCCAGAGTGACGCAGCAGGGCTTGGGTTGGGAATAAGGATGTGGGAGGCGGCGAACATGGACACGGTGGCTTAGT 64.20%
Apta_288 DNA ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT 59.26%
Apta_1051 DNA ATCCGTCACACCTGCTCTATACACATTGTGTTTACTCCCAGTTTTTTAGACTTATGGTGTTGGCTCCCGTAT 56.79%
Apta_1174 DNA ATGAGAGCGTCGGTGTGGTAAGTATGATATCGGTGTTTATGGTGTCTGTCTTCATACTCTTGCTGTAGGAGGGTGCGGAAGTA 56.63%
Apta_1175 DNA ATGAGAGCGTCGGTGTGGTATCCTACTCGTGATATCGGTGTTTATGGTGTCTGTCTTCATGTAGGAGGGTGCGGAAGTA 55.56%
Apta_525 DNA ATCCGTCACACCTGCTCTCAATCTGAAATATTGCAAGCAGTGCTCACAATTTGTTGGTGTTGGCTCCCGTAT 54.32%
Apta_530 DNA ATCCGTCACACCTGCTCTGTGTACGCCCGTATTTACGTTCCTAGCAATTGCTATGTGGTGTTGGCTCCCGTAT 54.32%

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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