PTSDgene database

SNP Report

Basic Info
Name rs73220799 dbSNP Ensembl
Location 12:94120632 - 94120632(+)
Variant Seq A,T
Ancestral Allele C
Ref Seq C
Minor Allele Frequence 0.063099
Annotation downstream_gene_variant
SIFT Annotation tolerated_-_low_confidence
SIFT Variant Effect tolerated_-_low_confidence(ENST00000548483)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000548483)
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
Nievergelt, C. M.,2015 PTSD In subjects of European: P-value=4.3E-06. In meta-analysis:...... In subjects of European: P-value=4.3E-06. In meta-analysis: P-value=4.4E-07. More... It met the threshold for suggestive evidence of association ...... It met the threshold for suggestive evidence of association (P-value<5E-06). More... Trend
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 Gene and childhood trauma interaction: P-value<0.05 in any s...... Gene and childhood trauma interaction: P-value<0.05 in any subjects. 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: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
PLXNC1 plexin C1 12q23 1(0/0/1)

SNPs in LD with rs73220799 (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
RP11-707O23.5 No Adipose Subcutaneous cis GTEx