AptaDB: Result

Interaction ID: 811

Aptamer sequence: AACACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCCGGTG

Target unique ID: CCL-119

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_729	TD05	Cell	Ramos Cells (B-cell lymphoma cell line)	74.7 nM	4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS	17530817

Aptamer Sequence:	AACACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCCGGTG
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

Type	Detail	Type	Detail
Aptamer ID	Apta_729	Description	TD05
Aptamer chemistry	DNA	Length	48 nt
GC content	60.4%	Molecular weight	14,847.49 Da
Molarity of 1 μg/μl solution	67.35 μM	Number of G-quadruplexes	2
G-Score	17	Function	Target recognition
Sequence	AACACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCCGGTG
Applications	Specifically recognize the target lymphoma cells mixed with normal human bone marrow aspirates

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

	Interaction ID	811
	Target type	Cell
	Target unique ID	CCL-119
	Activity	74.7 nM
	Binding Conditions/Buffer	4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS
	Assay	Kd determination of aptamers. Flow cytometry assay was employed for the binding affinity measurement
	PubMed ID	17530817

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_391	DNA	ACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCACGGT	89.58%
Apta_393	DNA	AGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCT	77.08%
Apta_392	DNA	GGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCT	68.75%
Apta_552	DNA	CACCTGGGGGAGTATTGCGGAGGAAGGTTCCAGGTG	58.33%
Apta_654	DNA	GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTG	57.41%
Apta_649	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTG	56.25%
Apta_405	DNA	TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG	55.74%
Apta_1276	DNA	TCAATGGGATGTTAGTATGCAAAGATATTCTGTTCAGTGTGTGCCCAGGCCCCCAGGG	55.17%
Apta_910	DNA	TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA	54.55%
Apta_585	DNA	GATCGAGGGCAGCGATAGCTGGGCTAATAAGGTTAGCCCCATCGGTC	54.17%
Apta_750	DNA	ATGCGAACAGGTGGGTGGGTTGGGTGGATTGTTCGGCTTCTTGAT	54.17%
Apta_1092	DNA	CCCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG	54.17%
Apta_1093	DNA	AGGAGGGTAGGTAGTGCTTGGTAGGGAAACTCCGCCGATT	54.17%
Apta_882	DNA	AATAGTCTGGTTCGGTGCTTGGTGCGATGTGTTAGTCAGACTCTTGTGTG	54.00%
Apta_940	DNA	TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT	54.00%
Apta_650	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTGGGGAGGTGCGGTTGC	53.85%
Apta_656	DNA	GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTGGGGAGGTGCGGTTGC	53.62%
Apta_1117	DNA	CGTACGGAATTCGCTAGCGGACTGGAGTCTAGACCGGGTAGCTGTGGTGGATCCGAGCTCCACGTG	53.03%
Apta_571	DNA	ACCTGCGATAGGTAGTTTGTTTCTGTTGCCCTAGCGTCCGTCGTAACAAGTCA	52.83%
Apta_140	DNA	GGCAGGAAGACAAACACGATGGGGGGGTATGATTTGATGTGGTTGTTGCATGATCGTGGTCTGTGGTGCTGT	52.78%

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