PTSDgene database

SNP Report

Basic Info
Name rs16904179 dbSNP Ensembl
Location 8:129946705 - 129946705(+)
Variant Seq A
Ancestral Allele G
Ref Seq G
Minor Allele Frequence 0.132388
Annotation intron_variant; non_coding_transcript_variant
Variant Effect intron_variant(ENST00000518283, ENST00000519020, ENST00000522361, ENST00000523288, ENST00000517654, ENST00000518879, ENST00000518167, ENST00000523993, ENST00000521223, ENST00000523509, ENST00000519142, ENST00000401979, ENST00000519110, ENST00000522702, ENST00000520146, ENST00000517672); non_coding_transcript_variant(ENST00000523288, ENST00000518879, ENST00000521223, ENST00000522702, ENST00000520146)
SIFT Annotation deleterious_-_low_confidence
SIFT Variant Effect deleterious_-_low_confidence(ENST00000615041)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000615041)
rSNP? Yes Link in rVarBase
Related Regulatory Elements Chromatin interactive region
Chromatin State Enhancers;Weak transcription;Strong transcription;Bivalent Enhancer
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=5.42E-06,...... Whole Cohort of African Americans: in GWAS,P-value=5.42E-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. More... Trend

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
FAM49B family with sequence similarity 49 member B 8q24.21 1(0/0/1)

SNPs in LD with rs16904179 (count: 1)
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: 1)

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