PTSDgene database

SNP Report

Basic Info
Name rs6650088 dbSNP Ensembl
Location 1:194347004 - 194347004(+)
Variant Seq G
Ancestral Allele A
Ref Seq A
Minor Allele Frequence 0.126597
Annotation upstream_gene_variant
Variant Effect upstream_gene_variant(ENST00000435554)
SIFT Annotation tolerated
SIFT Variant Effect tolerated(LRG_507t1, ENST00000367435)
PolyPhen Annotation possibly_damaging
PolyPhen Variant Effect possibly_damaging(LRG_507t1, ENST00000367435)
rSNP? Yes Link in rVarBase
Related Regulatory Elements Chromatin interactive region
Chromatin State Enhancers
No. of Marker's Association Results 1 (Positive: 0; Negative: 1; Trend: 0)
Source Literature

SNP related association results
Normal genetic study related association results (count: 1)
Reference Phenotype Statistical Values Author Comments Marker's Category
Solovieff, N.,2014 PTSD diagnosis P-value=0.079 P-value=0.079 Achieved nominal levels of significance with PTSD diagnosis,...... Achieved nominal levels of significance with PTSD diagnosis, although was not significant after correction for multiple testing More... Non-significant


SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
RGS2 regulator of G-protein signaling 2 1q31 7(2/5/0)

SNPs in LD with rs6650088 (count: 19)
The LD data used here is based on 1000 Genome Phase I. LD SNP pairs were selected with a threshold r2<=0.8.

Literature-origin SNPs (count: 0)

LD-proxies (count: 19)


SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
RP11-259G18.3 No Adipose Subcutaneous cis GTEx