PTSDgene database

Pathway Enrichment Analysis Protein-Protein Interaction Analysis

SNP Report

Basic Info

Name	rs62056779 dbSNP Ensembl
Location	17:45894571 - 45894571(+)
Variant Seq	A
Ancestral Allele	C
Ref Seq	C
Minor Allele Frequence	0.0860623
Annotation	5_prime_UTR_variant; upstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect	5_prime_UTR_variant(ENST00000535772, ENST00000344290, ENST00000351559, ENST00000262410, ENST00000571311, ENST00000340799); upstream_gene_variant(ENST00000446361, ENST00000334239, ENST00000570299, ENST00000624111); intron_variant(ENST00000634876, ENST00000579599, ENST00000579244); NMD_transcript_variant(ENST00000571311); non_coding_transcript_variant(ENST00000634876, ENST00000579599, ENST00000579244)
SIFT Annotation	tolerated
SIFT Variant Effect	tolerated(ENST00000329196)
PolyPhen Annotation	benign
PolyPhen Variant Effect	benign(ENST00000329196)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	TF binding region;CpG island;Chromatin interactive region
Chromatin State	Bivalent/Poised TSS;Active TSS;Flanking Bivalent TSS/Enh;Flanking Active TSS;Weak transcription;Enhancers;Transcr. at gene 5' nd 3'
No. of Marker's Association Results	0 (Positive: 0; Negative: 0; Trend: 0)
Source	LD-proxy

SNP related association results

SNP related genes (count: 5)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
MAPT-IT1	MAPT intronic transcript 1	17q21.31	Mapped by LD-proxy
ARHGAP27	Rho GTPase activating protein 27	17q21.31	rSNP target
MAPT-AS1	MAPT antisense RNA 1	17q21.31	Mapped by Literature SNP, Mapped by LD-proxy, rSNP target
MAPT	microtubule associated protein tau	17q21	Mapped by LD-proxy, rSNP target
HEXIM1	hexamethylene bis-acetamide inducible 1	17q21.31	rSNP target

SNPs in LD with rs62056779 (count: 0)

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
DND1P1	No	Adipose Subcutaneous	cis	GTEx