PTSDgene database

SNP Report

Basic Info
Name rs139604943 dbSNP Ensembl
Location 10:60652713 - 60652713(+)
Variant Seq T
Ancestral Allele A
Ref Seq A
Minor Allele Frequence 0.0125799
Annotation intron_variant; non_coding_transcript_variant
Variant Effect intron_variant(ENST00000373827, ENST00000510382); non_coding_transcript_variant(ENST00000510382)
SIFT Annotation tolerated_-_low_confidence
SIFT Variant Effect tolerated_-_low_confidence(ENST00000373827)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000373827)
rSNP? Yes Link in rVarBase
Related Regulatory Elements Chromatin interactive region
Chromatin State Weak transcription;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
Nievergelt, C. M.,2015 PTSD In 2179 MRS subjects of European descent: P-value=0.008. In 2179 MRS subjects of European descent: P-value=0.008. P-value is nominally significant (P-value<0.05). P-value is nominally significant (P-value<0.05). Significant
G*E study related association result (count: 1)
Reference Phenotype Environment Statistical Values Author Comments Marker's Category
Nievergelt, C. M.,2015 PTSD Childhood trauma In 2179 MRS subjects of European descent, gene and childhood...... In 2179 MRS subjects of European descent, gene and childhood trauma interaction: P-value<0.05. More... It showed a non-significant interaction effect with childhoo...... It showed a non-significant interaction effect with childhood trauma on PTSD. More... Non-significant


SNP related genes (count: 2)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
CDK1 cyclin-dependent kinase 1 10q21.2 rSNP target
ANK3 ankyrin 3, node of Ranvier (ankyrin G) 10q21 2(2/0/0)

SNPs in LD with rs139604943 (count: 0)

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