PTSDgene database

SNP Report

Basic Info
Name rs2572096 dbSNP Ensembl
Location 6:99003195 - 99003195(+)
Variant Seq C
Ancestral Allele T
Ref Seq T
Minor Allele Frequence 0.157149
Annotation upstream_gene_variant
SIFT Annotation deleterious_-_low_confidence
SIFT Variant Effect deleterious_-_low_confidence(ENST00000229971, ENST00000369244)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000229971, ENST00000369244)
rSNP? No Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Inactive region
No. of Marker's Association Results 1 (Positive: 0; Negative: 0; Trend: 1)
Source Literature

SNP related association results
Normal genetic study related association results (count: 1)
Reference Phenotype Statistical Values Author Comments Marker's Category
Xie, P.,2013 Lifetime PTSD Trauma Exposed African Americans: in GWAS,P-value=7.07E-06,i...... Trauma Exposed African Americans: in GWAS,P-value=7.07E-06,in replication,P-value=NT,in combined, P-value=NT. More... No significant signals were observed in the African American...... No significant signals were observed in the African American part of the sample. Genome-wide association study analyses restricted to trauma-exposed individuals yielded very similar results. More... Trend

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
FBXL4 F-box and leucine-rich repeat protein 4 6q16.1-q16.3 1(0/0/1)

SNPs in LD with rs2572096 (count: 16)
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: 16)

SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
CRHR1 Yes Adipose Subcutaneous cis GTEx