PTSDgene database

SNP Report

Basic Info
Name rs6602398 dbSNP Ensembl
Location 10:6040990 - 6040990(+)
Variant Seq T
Ancestral Allele G
Ref Seq G
Minor Allele Frequence 0.161342
Annotation downstream_gene_variant; intron_variant
Variant Effect downstream_gene_variant(ENST00000440436); intron_variant(ENST00000379954, LRG_73t1, ENST00000256876, ENST00000379959)
SIFT Annotation deleterious
SIFT Variant Effect deleterious(LRG_73t1, ENST00000447847, ENST00000379959, ENST00000379954, ENST00000256876)
PolyPhen Annotation probably_damaging
PolyPhen Variant Effect probably_damaging(LRG_73t1, ENST00000447847, ENST00000379959, ENST00000379954, ENST00000256876)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Weak transcription;Enhancers;Genic enhancers
No. of Marker's Association Results 1 (Positive: 1; Negative: 0; 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
Powers, A.,2016 Current PTSD Not control for emotion dysregulation: B=0.73, OR=2.07, P-va...... Not control for emotion dysregulation: B=0.73, OR=2.07, P-value<0.01. Control for emotion dysregulation: B=0.09, OR=1.265, P-value>0.05. More... Rs6602398 was significantly associated with current PTSD. Wh...... Rs6602398 was significantly associated with current PTSD. When emotion dysregulation symptoms were included in the model, the associations between rs6602398 and current PTSD was no longer significant. More... Significant

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
IL2RA interleukin 2 receptor subunit alpha 10p15-p14 1(1/0/0)

SNPs in LD with rs6602398 (count: 5)
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: 5)

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