AptaDB: Result

Interaction ID: 932

Aptamer sequence: GTGCAGACAGCTAGTAGTGGTGACTTTCTGTCCAAATCAAGATAA

Target unique ID: 30932

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_846	Malaria.2	Cell	Plasmodium falciparum	12 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:	GTGCAGACAGCTAGTAGTGGTGACTTTCTGTCCAAATCAAGATAA
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_846	Description	Malaria.2
Aptamer chemistry	DNA	Length	45 nt
GC content	42.2%	Molecular weight	13,907.97 Da
Molarity of 1 μg/μl solution	71.90 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	GTGCAGACAGCTAGTAGTGGTGACTTTCTGTCCAAATCAAGATAA
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	932
	Target type	Cell
	Target unique ID	30932
	Activity	12 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_1261	DNA	GGGCGGACGCTAGGTGGTGATGCTGTGCTACACGTGTTGT	62.22%
Apta_987	DNA	GTACTGTCAATTGGAAGTGGTGTTACGTTGTGTAGTCAAATCAGTGC	61.70%
Apta_507	DNA	GGCGGGGCTACGAAGTAGTGATTTTTTCCGATGGCCCGTG	55.56%
Apta_959	DNA	GGACCGCTAGGTTCGTGGCTGAGATCACGCGATATCAGTA	55.56%
Apta_573	DNA	CGTACAGTGGGCTATATTGCTGACGTAAGAGCTGCTTTCAATGCATTGGCATAGATGTCA	55.00%
Apta_910	DNA	TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA	54.55%
Apta_144	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAG	53.33%
Apta_183	DNA	TAGCACTGTGCGGCGCGTATTGTTCTAATCTGATTACATT	53.33%
Apta_275	DNA	AGTTGAATGGTGTGGTCACTTCCAGTCCCGCAGGGCACAC	53.33%
Apta_338	DNA	GGGCGCGTTCTTCGTGGTTACTTTTAGTCCCG	53.33%
Apta_441	DNA	TGAATCTCGCGCTCGTTGGTACCCTTAAAATAAAGGCATA	53.33%
Apta_1206	DNA	GGCAGCAGCAATGTAACACTGTGTGTATGTGTTGG	53.33%
Apta_1162	DNA	AGAGGCTACAGCGATAAGTCGACATTGCTGACCGTACCTAGTAATACGT	53.06%
Apta_571	DNA	ACCTGCGATAGGTAGTTTGTTTCTGTTGCCCTAGCGTCCGTCGTAACAAGTCA	52.83%
Apta_883	DNA	CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA	51.67%
Apta_48	DNA	ACTGGGCAGATTAACGGTCCTATATTTTCGGTTCTGGAAA	51.11%
Apta_145	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGA	51.11%
Apta_161	DNA	GTGTGCAGATCTGATTGCCTGCGTCAACCTACATACAAC	51.11%
Apta_163	DNA	GCGCATGACCATTGATGTCTGCACCATCAGAGGCAGAG	51.11%
Apta_260	DNA	GACGTTAAGCTAGCAGGTGTTAGGTCCCGTGGTGATGAAT	51.11%

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