Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 814
Aptamer sequence: AAGGAGCAGCGTGGAGGATAGCTGTCATCGGCTTATGTGCTTTCCAGGGTCCGTGCTGTCCGTTGTTAGGGTGTGTCGTCGTGGT
Target unique ID: CCL-119
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_732 TD09 Cell Ramos Cells (B-cell lymphoma cell line) 5.15 nM 4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS 17530817
Structure information of aptamer
Aptamer Sequence: AAGGAGCAGCGTGGAGGATAGCTGTCATCGGCTTATGTGCTTTCCAGGGTCCGTGCTGTCCGTTGTTAGGGTGTGTCGTCGTGGT
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_732 Description TD09
Aptamer chemistry DNA Length 85 nt
GC content 56.5% Molecular weight 26,453.83 Da
Molarity of 1 μg/μl solution 37.80 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Target recognition
Sequence AAGGAGCAGCGTGGAGGATAGCTGTCATCGGCTTATGTGCTTTCCAGGGTCCGTGCTGTCCGTTGTTAGGGTGTGTCGTCGTGGT
Applications Specifically recognize the target lymphoma cells mixed with normal human bone marrow aspirates
Target information
Type Detail Type Detail
ATCC ID CCL-119 Cell name Ramos Cells (B-cell lymphoma cell line)
Category Human cells Organism Homo sapiens, human
Product type N/A Cell type T lymphoblast
Morphology lymphoblast Tissue Peripheral blood
Disease Acute lymphoblastic leukemia ALL Product format Frozen
Antigen expression CD3; CD4; CD5; CD7; Genes expressed CD3; CD5; CD7; CD4
Cell description These CCRF-CEM human T lymphoblasts are isolated from the peripheral blood of a female, Caucasian 4 year old with acute lymphoblastic leukemia (ALL). The cell line can be used for immuno-oncology and immunology research. It is also a suitable transfection host.
Application(s) 3D cell culture; Immune system disorder research; Immunology; Immuno-oncology
Activity data

No relevant experimental diagram

 Interaction ID 814
Target type Cell
Target unique ID CCL-119
Activity 5.15 nM
Binding Conditions/Buffer

4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS
Assay

N/A
PubMed ID 17530817
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_731 DNA AAGGAGCAGCGTGGAGGATACTCTAATTGCCGTATAAGGTCAGGGGGTTGGTTGGTTCCTAGTGCTTAGGGTGTGTCGTCGTGGT 72.94%
Apta_800 DNA AAGGAGCAGCGTGGAGGATATACACCGTCATCAGAGGGAGCATCTCTAGTCAGGACTGTGATGAATTAGGGTGTGTCGTCGTGGT 70.59%
Apta_832 DNA CCGGAGGTGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGACCGGAGGGGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGA 56.47%
Apta_1175 DNA ATGAGAGCGTCGGTGTGGTATCCTACTCGTGATATCGGTGTTTATGGTGTCTGTCTTCATGTAGGAGGGTGCGGAAGTA 56.47%
Apta_67 DNA AGATGCCTGTCGAGCATGCTGTTGTGGTAGGGTTAGGGATGGTAGCGGTTGTAGCTAAACTGCTTTGTCGACGGG 55.29%
Apta_656 DNA GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTGGGGAGGTGCGGTTGC 55.29%
Apta_739 DNA ATCGTCTGCTCCGTCCAATAGCGTGCATTGGTTTACTGCATCCGTGAAACTGGGCTTTGGTGTGAGGTCGTGC 55.29%
Apta_1088 DNA ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT 55.29%
Apta_1174 DNA ATGAGAGCGTCGGTGTGGTAAGTATGATATCGGTGTTTATGGTGTCTGTCTTCATACTCTTGCTGTAGGAGGGTGCGGAAGTA 55.29%
Apta_68 DNA AGATGCCTGTCGAGCATGCTGTGAATAGGTAGGGTCGGATGGGCTACGGTGTAGCTAAACTGCTTTGTCGACGGG 54.12%
Apta_236 DNA AGCAGCACAGAGGTCAGATGAGATGGTTGACCGGTTGATGTGATTAAGGAGACGTCGATTCCTATGCGTGCTACCGTGAA 54.12%
Apta_891 DNA GGAGACCGTACCATCTGTTCGTGGAAGCGCTTTGCTCGTCCATTAGCCTTGTGCTCGTGC 54.12%
Apta_103 DNA AGCAGCACAGAGGTCAGATGCATCGCATTATTCGCGGCCGGCCAACGAGAGTATGTTTCTCCTATGCGTGCTACCGTGAA 52.94%
Apta_103 DNA AGCAGCACAGAGGTCAGATGCATCGCATTATTCGCGGCCGGCCAACGAGAGTATGTTTCTCCTATGCGTGCTACCGTGAA 52.94%
Apta_223 DNA CATTGAGATAGCTAGTTGTAGCTGCGTCATAGGCTGGGTTGGGTCTAGTGGTTGGGTGTG 52.94%
Apta_233 DNA AGCAGCACAGAGGTCAGATGTGAAACATAGCATATTTACTTATGTCGCCTTGCCGGTTCCTATGCGTGCTACCGTGAA 52.94%
Apta_508 DNA GCGGGCGATCGGCGGGGGGTGCGTGCGCTCTGTGCCAGGGGGTGGGACAGATCATATGGGGGTGCT 52.94%
Apta_661 DNA GGACAACATAGGAAAAAGGCTCTGCTACCGGATCCCTGTTGTATGGGCATATCTGTTGAT 52.94%
Apta_736 DNA ATCGTCTGCTCCGTCCAATATGATGACACCTGCATAATTTATAGTGAGTCTTGATTCACGCTGCATTTGGTGTGAGGTCGTGC 52.94%
Apta_740 DNA ATCGTCTGCTCCGTCCAATAAACCTGCATAATTTATAAGTCTAGACTGCTGCATTTGGTGTGAGGTCGTGC 52.94%

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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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