AptaDB: Result

Interaction ID: 812

Aptamer sequence: ACCAAACACAGATGCAACCTGACTTCTAACGTCATTTGGTG

Target unique ID: CCL-119

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_730	TC01	Cell	Ramos Cells (B-cell lymphoma cell line)	17.8 nM	4.5 g/L glucose and 5 mM MgCl2 in Dulbecco's PBS	17530817

Aptamer Sequence:	ACCAAACACAGATGCAACCTGACTTCTAACGTCATTTGGTG
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_730	Description	TC01
Aptamer chemistry	DNA	Length	41 nt
GC content	43.9%	Molecular weight	12,537.10 Da
Molarity of 1 μg/μl solution	79.76 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Target recognition
Sequence	ACCAAACACAGATGCAACCTGACTTCTAACGTCATTTGGTG
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	812
	Target type	Cell
	Target unique ID	CCL-119
	Activity	17.8 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_261	DNA	TAAACCCCAAAACAGTGCAACTAGGTGTAGGTCCCGTGGT	56.10%
Apta_868	DNA	CCCAGAAACAGCACCCTTACATCGACTGGACCTTCCGCG	56.10%
Apta_1228	DNA	GGCCACCAAACCACACCGTCGCAACCGCGAGAACCGAAGTAGTGATCATGTCCCTGCGTG	55.00%
Apta_1267	DNA	GGCACGGCAAAGGGGTACAGCCTACCGAACCGTGGCTGTAAGGGTGGTTGTGGTGTG	54.39%
Apta_689	DNA	CCACACAACAGCCTACGTGGATACACCACATACATCCCATAACCCCGTGTCATGTGTCG	54.24%
Apta_395	DNA	AATCCACGTATCGACTAGCTCAAACCAGCCTGATAGAGCCATTCGCTTTA	54.00%
Apta_434	DNA	ACACGACGGGAATACTGACTCTCCCCCATGT	53.66%
Apta_649	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTG	53.66%
Apta_677	DNA	CCAAATGCGACGGGGCCTGTTTTAATGGGG	53.66%
Apta_1059	DNA	TCGTGACGCCGTGCAGTTACCGATACGAGCCTCGTTTTG	53.66%
Apta_1206	DNA	GGCAGCAGCAATGTAACACTGTGTGTATGTGTTGG	53.66%
Apta_694	DNA	ACTCACTATGGAAGAGATGGCGACATCTCTTCTCCGAGCCGGTCGAAATAGTGAGT	53.57%
Apta_1218	DNA	CGACACCACACAGCAGTAAGCACTACAACATAGTGGTCTAGACTATCTCGGGCCGGTG	53.45%
Apta_834	DNA	CGCAATACCAAAGTGGCGAGAGCGCTGTCTTGAGTGAGTGGTTGG	53.33%
Apta_1227	DNA	CACACCAAACACACAAGTGGACCCTGACGCATGGATAGGGTGACGGTATACGCGGGCATG	53.33%
Apta_1232	DNA	GGCCACACAAACAACATGACAACACGTCTCACATAACGCCCACGTGCTGCCGCCTCATCG	53.33%
Apta_652	DNA	CCTGCACCTCGTCCAGCATGCACACCGATGGCGGTCCTGGCAGGGGGTGTGCGTG	52.73%
Apta_685	DNA	GGGGCAACAAACACGGAAGAAAATGAATCTACATACGTGGACATATATCCTGCCGCGTG	52.54%
Apta_1265	DNA	CACGCACACAACAGCCAATAATGTATAACGCTGTCCACTGTGTGGTGTCCCCCGCGTCG	52.54%
Apta_335	DNA	ACCGGGCGTACACCGTCGCGGCACATGTCTGAATGCGTTTAGTCTCTGTG	52.00%

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