PTSDgene database

SNP Report

Basic Info
Name rs6969903 dbSNP Ensembl
Location 7:17438834 - 17438834(+)
Variant Seq C,G
Ancestral Allele T
Ref Seq T
Minor Allele Frequence 0.043131
Annotation intron_variant; non_coding_transcript_variant
Variant Effect intron_variant(ENST00000439046, ENST00000419463, ENST00000454003); non_coding_transcript_variant(ENST00000439046, ENST00000419463, ENST00000454003)
SIFT Annotation deleterious_-_low_confidence
SIFT Variant Effect deleterious_-_low_confidence(ENST00000463496, ENST00000242057)
PolyPhen Annotation possibly_damaging
PolyPhen Variant Effect possibly_damaging(ENST00000463496, ENST00000242057)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Weak transcription;Enhancers
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=1.11E-05,...... Whole Cohort of African Americans: in GWAS,P-value=1.11E-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)
AHR aryl hydrocarbon receptor 7p15 1(0/0/1)

SNPs in LD with rs6969903 (count: 4)
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: 4)

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