AptaDB: Result

Interaction ID: 817

Aptamer sequence: AGGCCCCCAGGCTCGGTGGATGCAAACACATGACTATGGGCCCGT

Target unique ID: CCL-119

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_735	TE13	Cell	Ramos Cells (B-cell lymphoma cell line)	202 nM	4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS	17530817

Aptamer Sequence:	AGGCCCCCAGGCTCGGTGGATGCAAACACATGACTATGGGCCCGT
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_735	Description	TE13
Aptamer chemistry	DNA	Length	45 nt
GC content	62.2%	Molecular weight	13,856.89 Da
Molarity of 1 μg/μl solution	72.17 μM	Number of G-quadruplexes	2
G-Score	17	Function	Target recognition
Sequence	AGGCCCCCAGGCTCGGTGGATGCAAACACATGACTATGGGCCCGT
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	817
	Target type	Cell
	Target unique ID	CCL-119
	Activity	202 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_937	DNA	TTGCCCACAGATCTGTGGAAGCCGAACCGCGTGCTAGTCGTG	57.78%
Apta_959	DNA	GGACCGCTAGGTTCGTGGCTGAGATCACGCGATATCAGTA	57.78%
Apta_406	DNA	AAAGCCCACTGCATAGAGGCCGCTCAACATGCGAGCCGGT	55.56%
Apta_888	DNA	GGCGACCCCCGGGCTACCAGACAATGTACGCAGCAAGAGTGACGGTCGTACCTCGGAGTC	55.00%
Apta_158	DNA	CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTG	53.33%
Apta_1012	DNA	CACATTAGGGCGGGGTACTCCTATCACGTATGGGGGCCTGT	53.33%
Apta_1257	DNA	CGACGCACAGTCGCTGGTGCGTACCTGGTTGCCGTTGTGT	53.33%
Apta_1268	DNA	CACACACGCAGCAAGGTCGTCGATACAAAACGTATCGACCCGTCACAGACTGCCCCGGGT	53.33%
Apta_685	DNA	GGGGCAACAAACACGGAAGAAAATGAATCTACATACGTGGACATATATCCTGCCGCGTG	52.54%
Apta_177	DNA	AGCAGCACAGAGGTCAGATGCCATAGGTGCCTGAATTGTCCCAAACATTCGCATGATCGACCTATGCGTGCTACCGTGAA	52.50%
Apta_1018	DNA	ATCCCTGCAGTTTGGTAGGGTGCGAGCAACATCAGGCACCTGCAGG	52.17%
Apta_728	DNA	CGACCCGGCACAAACCCAGAACCATATACACGATCATTAGTCTCCTGGGCCG	51.92%
Apta_756	DNA	GGGGGACACGGAGGTGGTGGAAAGGCTAAGATTTGATGATGAGTAGTGTGGT	51.92%
Apta_617	DNA	CAATGGGGTCGGGCGGGCCGGGTGTCATGGTGGACGGAGATGGGACGTAGAGGGCGGT	51.72%
Apta_1218	DNA	CGACACCACACAGCAGTAAGCACTACAACATAGTGGTCTAGACTATCTCGGGCCGGTG	51.72%
Apta_664	DNA	CACGCAACAACACAACATGCCCAGCGCCTGGAACATATCCTATGAGTTAGTCCGCCCACA	51.67%
Apta_684	DNA	GGCGGACCAAGGGGACACCACAGATGAATGTACAGTACCATGTTACTGCGCCCGTAGGTG	51.67%
Apta_983	DNA	ATGGGAACAGAGCGGCGCAGAGACCCAATGCCACGAGTACCTGACCCTATCAACCCGTGA	51.67%
Apta_1228	DNA	GGCCACCAAACCACACCGTCGCAACCGCGAGAACCGAAGTAGTGATCATGTCCCTGCGTG	51.67%
Apta_32	DNA	CGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCG	51.11%

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