PTSDgene database

Pathway Enrichment Analysis Protein-Protein Interaction Analysis

SNP Report

Basic Info

Name	rs472054 dbSNP Ensembl
Location	15:78595652 - 78595652(+)
Variant Seq	G
Ancestral Allele	A
Ref Seq	A
Minor Allele Frequence	0.256989
Annotation	downstream_gene_variant; upstream_gene_variant; 3_prime_UTR_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect	downstream_gene_variant(ENST00000559576, ENST00000559554, ENST00000299565, ENST00000624172, ENST00000394802); upstream_gene_variant(ENST00000567141); 3_prime_UTR_variant(ENST00000326828); intron_variant(ENST00000559002, ENST00000348639, ENST00000559658); NMD_transcript_variant(ENST00000559658); non_coding_transcript_variant(ENST00000559002)
SIFT Annotation	deleterious
SIFT Variant Effect	deleterious(ENST00000326828, ENST00000348639, ENST00000559658)
PolyPhen Annotation	possibly_damaging
PolyPhen Variant Effect	possibly_damaging(ENST00000326828, ENST00000348639, ENST00000559658)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	TF binding region;Chromatin interactive region
Chromatin State	Weak transcription;Strong transcription
No. of Marker's Association Results	0 (Positive: 0; Negative: 0; Trend: 0)
Source	LD-proxy

SNP related association results

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
CHRNA3	cholinergic receptor, nicotinic alpha 3	15q24	1(0/1/0)
CHRNA5	cholinergic receptor, nicotinic alpha 5	15q24	2(1/1/0)

SNPs in LD with rs472054 (count: 0)

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
RP11-259G18.3	No	Adipose Subcutaneous	cis	GTEx