AptaDB: Result

Interaction ID: 346

Aptamer sequence: TCGGGGTTTGGGGGTTCGGGGTCGGTTCGGTTTCTTCTAATGGA

Target unique ID: P16422

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_341	SYL-H2C	Protein	EPCAM_HUMAN	34.7 nM	PBS, pH=7.4 (including 136.8 mM NaCl, 10.1 mM Na2HPO4, 2.7 mM KCl, 1.8 mM KH2PO4, 0.55 mM MgCl2)	31347355

Aptamer Sequence:	TCGGGGTTTGGGGGTTCGGGGTCGGTTCGGTTTCTTCTAATGGA
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_341	Description	SYL-H2C
Aptamer chemistry	DNA	Length	44 nt
GC content	56.8%	Molecular weight	13,974.69 Da
Molarity of 1 μg/μl solution	71.56 μM	Number of G-quadruplexes	2
G-Score	20	Function	Target detection
Sequence	TCGGGGTTTGGGGGTTCGGGGTCGGTTCGGTTTCTTCTAATGGA
Applications	Detect circulating tumor cells in real cancer patient blood samples with excellent detection accuracy

Type	Detail	Type	Detail
Uniprot ID	P16422	Protein name	Epithelial cell adhesion molecule (Ep-CAM) (Adenocarcinoma-associated antigen) (Cell surface glycoprotein Trop-1) (Epithelial cell surface antigen) (Epithelial glycoprotein) (EGP) (Epithelial glycoprotein 314) (EGP314) (hEGP314) (KS 1/4 antigen) (KSA) (Major gastrointestinal tumor-associated protein GA733-2) (Tumor-associated calcium signal transducer 1) (CD antigen CD326)
Gene name(s)	EPCAM GA733-2 M1S2 M4S1 MIC18 TACSTD1 TROP1	Organism	Epithelial cell adhesion molecule (Ep-CAM) (Adenocarcinoma-associated antigen) (Cell surface glycoprotein Trop-1) (Epithelial cell surface antigen) (Epithelial glycoprotein) (EGP) (Epithelial glycoprotein 314) (EGP314) (hEGP314) (KS 1/4 antigen) (KSA) (Major gastrointestinal tumor-associated protein GA733-2) (Tumor-associated calcium signal transducer 1) (CD antigen CD326)
Status	reviewed in uniprot database	Length	314
Mass	34,932	Activity regulation	N/A
Involvement in disease	Diarrhea 5, with tufting enteropathy, congenital (DIAR5)	Catalytic activity	N/A
PDB ID(s)	4MZV;6I07;
Function	May act as a physical homophilic interaction molecule between intestinal epithelial cells (IECs) and intraepithelial lymphocytes (IELs) at the mucosal epithelium for providing immunological barrier as a first line of defense against mucosal infection.

	Interaction ID	346
	Target type	Protein
	Target unique ID	P16422
	Activity	34.7 nM
	Binding Conditions/Buffer	PBS, pH=7.4 (including 136.8 mM NaCl, 10.1 mM Na2HPO4, 2.7 mM KCl, 1.8 mM KH2PO4, 0.55 mM MgCl2)
	Assay	The dissociation constant of aptamer SYL-H2C against SW480 cells in plasma
	PubMed ID	31347355

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_148	DNA	CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGGTGGCGTGG	56.82%
Apta_149	DNA	CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG	56.82%
Apta_1085	DNA	TGGGGTGGTGGTGTGGGTGGGGGTTTGTTC	56.82%
Apta_982	DNA	ATGACGGGGGTCTAGGCAAGTAATAACGGGGGCAAGCTTTTCTATCTCGTTCTAGGGTA	55.93%
Apta_391	DNA	ACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCACGGT	55.56%
Apta_311	DNA	GTGGGGTTGGGTGGGTTTGGGTTATGGGCGCTCCGGCCCGGCGTCTTGCGTCCCTTCCAT	55.00%
Apta_36	DNA	GTTAATGGGGGATCTCGCGGCCGTTCTTGTTGCTTATACA	54.55%
Apta_124	DNA	GGTGGTGGGGGGGGTTGGTAGGGTGTCTTC	54.55%
Apta_150	DNA	CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG	54.55%
Apta_482	DNA	AGCAAGGTTTGGTGTTGGTTGGTTGCTGGTTTTGGTTTC	54.55%
Apta_565	DNA	GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG	54.55%
Apta_693	DNA	CGAGTTGAGCCGGGCGCGGTACGGGTACTGGTATGTGTGG	54.55%
Apta_1014	DNA	TGGGGGTTGGGTGGATAGGCTGGCGTCGGGGCAGGTCAGT	54.55%
Apta_1186	DNA	AGGGGGTTTTGGTGGGGGGGGCTGGGTTGTCTTGGGGGTGGGCT	54.55%
Apta_795	DNA	CGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGA	54.17%
Apta_1042	DNA	ATCACGATATGCCCGGCTCATCGGGGTTCAGTTGGGCGGTCACATGGAAA	54.00%
Apta_609	DNA	GCTGCGAGGTGGGTGGGTGGGAGCAATTGGTCCTCGCTTAGCTTCTACGGTGGGCTATCT	53.33%
Apta_610	DNA	GCTGTGAGGTGGGTGGGTGGGAGCAATTGGTCCTCGCTTAGCTTCTACGGTGGGCTATCT	53.33%
Apta_750	DNA	ATGCGAACAGGTGGGTGGGTTGGGTGGATTGTTCGGCTTCTTGAT	53.33%
Apta_1185	DNA	CAGGGGGTTTTGGTGGGGGGGGCTGGGTTGTCTTGGGGGTGGGCT	53.33%

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