AptaDB: Result

Interaction ID: 933

Aptamer sequence: CACTAGGATCTAGGGAAAAATCTCGTAAATACTATACTCCTGAGC

Target unique ID: 30932

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_847	Malaria.3	Cell	Plasmodium falciparum	13 nM	RPMI-1640 (pH 7.2) supplemented with BSA (1 mg/mL, Sigma, St Louis, MO), yeast tRNA (0.1 mg/mL, Invitrogen)	32546848

Aptamer Sequence:	CACTAGGATCTAGGGAAAAATCTCGTAAATACTATACTCCTGAGC
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_847	Description	Malaria.3
Aptamer chemistry	DNA	Length	45 nt
GC content	40.0%	Molecular weight	13,820.94 Da
Molarity of 1 μg/μl solution	72.35 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	CACTAGGATCTAGGGAAAAATCTCGTAAATACTATACTCCTGAGC
Applications	Malaria diagnosis and surveillance

Type	Detail	Type	Detail
ATCC ID	30932	Cell name	Plasmodium falciparum
Category	Protists	Organism	N/A
Product type	Parasitic protozoan	Cell type	N/A
Morphology	N/A	Tissue	N/A
Disease	N/A	Product format	Frozen
Antigen expression	N/A	Genes expressed	N/A
Cell description	N/A
Application(s)	Infectious disease research; Vector-borne disease research

	Interaction ID	933
	Target type	Cell
	Target unique ID	30932
	Activity	13 nM
	Binding Conditions/Buffer	RPMI-1640 (pH 7.2) supplemented with BSA (1 mg/mL, Sigma, St Louis, MO), yeast tRNA (0.1 mg/mL, Invitrogen)
	Assay	Binding isotherm: Putative aptamer sequences were labeled at the 5′ end with [32P]. Five million cells per well were incubated with increasing concentrations of labeled sequences in bufer. Afer three washes, the amount of 32P-labeled aptamer associated with cells was determined by liquid scintillation counting. Data were normalized by fraction bound. Malaria.1, Malaria.2 and Malaria.3 bind to IEs with high afnity but the randomly generated control sequence of the same length (RDM1) shows no binding to IEs
	PubMed ID	32546848

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_158	DNA	CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTG	55.56%
Apta_339	DNA	CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTGT	55.56%
Apta_1127	DNA	TCGGGCGAGTCGTCTGCGAGGCAACAAGCTCGTAATCCGCATCGTCCTCCC	54.90%
Apta_689	DNA	CCACACAACAGCCTACGTGGATACACCACATACATCCCATAACCCCGTGTCATGTGTCG	54.24%
Apta_421	DNA	ATCTACGAATTCATCAGGGCTAAAGAGTGCAGAGTTACTTAGCCCGTGA	53.06%
Apta_685	DNA	GGGGCAACAAACACGGAAGAAAATGAATCTACATACGTGGACATATATCCTGCCGCGTG	52.54%
Apta_728	DNA	CGACCCGGCACAAACCCAGAACCATATACACGATCATTAGTCTCCTGGGCCG	51.92%
Apta_981	DNA	TATGGAGAGTCAATGAGTACAGTCTCGTCTCAATAACGGAGCCTCGTCCGTGCCCCCG	51.72%
Apta_56	DNA	GCAGCTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGC	51.11%
Apta_222	DNA	AGCGACTGACGATCTTGAGTAAACCGCTCATCCACGTAGT	51.11%
Apta_291	DNA	AAAAATCTAGGCGCTGAAGCCCCGCTTCCTTACCTTCAC	51.11%
Apta_343	DNA	AACAGAGGGACAAACGGGGGAAGATTTGACGTCGACGAC	51.11%
Apta_434	DNA	ACACGACGGGAATACTGACTCTCCCCCATGT	51.11%
Apta_446	DNA	AGCCATGACGATGTCGTTACGTAGATGCATAGACTCCTAA	51.11%
Apta_578	DNA	CACCAAGCGCAGGGAATTACATTGAAGTGTGGGATTGGCT	51.11%
Apta_870	DNA	CCGGGGAATCTAGGGGAGGGCGGGTGGGTCAATTGAGCCG	51.11%
Apta_985	DNA	CCAGGAGGACCCTATTCTCGTGTATCGACGAGATCCAGTG	51.11%
Apta_1139	DNA	AATAGGGTAAAAAAAAAAAGTTGGTCCTATG	51.11%
Apta_1198	DNA	CTTTTAAGAACCGGACGAACTAGAATATTATATTTT	51.11%
Apta_1033	DNA	CACAGGTTCCAGGTAATACCTAAGGGTATGCTCTCGCCTATTATATGGAGCAC	50.94%

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