Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 816
Aptamer sequence: TCCTCGATGCACCAGTTCACCTTATTTGCTTCTTCTCTCTGTTCTGACTGGGTGCTGAGGA
Target unique ID: CCL-119
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_734 TE04 Cell Ramos Cells (B-cell lymphoma cell line) 207 nM 4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS 17530817
Structure information of aptamer
Aptamer Sequence: TCCTCGATGCACCAGTTCACCTTATTTGCTTCTTCTCTCTGTTCTGACTGGGTGCTGAGGA
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_734 Description TE04
Aptamer chemistry DNA Length 61 nt
GC content 49.2% Molecular weight 18,635.90 Da
Molarity of 1 μg/μl solution 53.66 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Target recognition
Sequence TCCTCGATGCACCAGTTCACCTTATTTGCTTCTTCTCTCTGTTCTGACTGGGTGCTGAGGA
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 816
Target type Cell
Target unique ID CCL-119
Activity 207 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_922 DNA ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT 59.15%
Apta_726 DNA TACCAGTGCGATGCTCAGGCCGATGTCAACTTTTTCTAACTCACTGGTTTTGCCTGACGCATTCGGTTGAC 56.34%
Apta_1283 DNA TACTGATGCAGGGTAATGCTTCTGTGTTTGTTCTTCATCATTAACGGCCGCGTCTGGCGG 55.74%
Apta_1050 DNA ATCCGTCACACCTGCTCTCACGTCCGTCAACCAGATTGATACTTTATCTTGTTGTGGTGTTGGCTCCCGTAT 55.56%
Apta_923 DNA ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT 55.41%
Apta_784 DNA ATCCAGAGTGACGCAGCATTTTGACGCTTTATCCTTTTCTTATGGCGGGATAGTTTCGTGGACACGGTGGCTTAGT 55.26%
Apta_786 DNA ATCCAGAGTGACGCAGCATTTGTATCCTATTTTGTTTATGTAATTGTCGTTGATCATGTGGACACGGTGGCTTAGT 55.26%
Apta_725 DNA ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT 54.32%
Apta_1174 DNA ATGAGAGCGTCGGTGTGGTAAGTATGATATCGGTGTTTATGGTGTCTGTCTTCATACTCTTGCTGTAGGAGGGTGCGGAAGTA 54.22%
Apta_532 DNA ATCCGTCACACCTGCTCTAACTTACACATAATTCTAGGTTACATCTTGCTCATATGGTGTTGGCTCCCGTAT 54.17%
Apta_1051 DNA ATCCGTCACACCTGCTCTATACACATTGTGTTTACTCCCAGTTTTTTAGACTTATGGTGTTGGCTCCCGTAT 54.17%
Apta_604 DNA TCCTGACCTTAGCCTATGTTTTCTCTACCGGCTATGTTAC 54.10%
Apta_1177 DNA TCCTACTCGTGATATCGGTGTTTATGGTGTCTGTCTTCATGTAGGA 54.10%
Apta_785 DNA ATCCAGAGTGACGCAGCATGAATCTTTTCTTTTGGTTTTGATATTTATAGTTGGTGAATGGACACGGTGGCTTAGT 53.95%
Apta_787 DNA ATCCAGAGTGACGCAGCATTTGTTTAATATGTTTTTTAATTCCCCTTGTGGTGTGTTGTGGACACGGTGGCTTAGT 53.95%
Apta_887 DNA ACGCTCGGATGCCACTACAGGGGGGTGGTCCTGAGGGTGGTGTGGTTGGTTTGGTTTCCTCATGGACGTGCTGGTGAC 53.85%
Apta_1293 DNA ATCCAGAGTGACGCAGCATGCCCTAGTTACTACTACTCTTTTTAGCAAACGCCCTCGCTTTGGACACGGTGGCTTAGT 53.85%
Apta_530 DNA ATCCGTCACACCTGCTCTGTGTACGCCCGTATTTACGTTCCTAGCAATTGCTATGTGGTGTTGGCTCCCGTAT 53.42%
Apta_554 DNA TGTACCGTCTGAGCGATTCGTACCATTAGTGGGTGCTCCTTACCTGATGGTCATCTAGCCAGTCAGTGTTAAGGAGTGC 53.16%
Apta_1175 DNA ATGAGAGCGTCGGTGTGGTATCCTACTCGTGATATCGGTGTTTATGGTGTCTGTCTTCATGTAGGAGGGTGCGGAAGTA 53.16%

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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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