PTSDgene database

SNP Report

Basic Info
Name rs7207499 dbSNP Ensembl
Location 17:66451047 - 66451047(+)
Variant Seq A
Ancestral Allele A
Ref Seq G
Minor Allele Frequence 0.194688
Annotation intron_variant; NMD_transcript_variant
Variant Effect intron_variant(ENST00000284384, ENST00000413366, ENST00000578063); NMD_transcript_variant(ENST00000284384, ENST00000578063)
SIFT Annotation tolerated_-_low_confidence; tolerated
SIFT Variant Effect tolerated_-_low_confidence(ENST00000284384); tolerated(ENST00000578063, ENST00000413366)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000578063, ENST00000413366, ENST00000284384)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Enhancers;Weak transcription
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 Whole Cohort of African Americans: in GWAS,P-value=1.16E-05,...... Whole Cohort of African Americans: in GWAS,P-value=1.16E-05,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. More... Trend

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
PRKCA protein kinase C, alpha 17q24.2 10(9/0/1)

SNPs in LD with rs7207499 (count: 8)
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: 8)

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