PTSDgene database

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