PTSDgene database

SNP Report

Basic Info
Name rs12592749 dbSNP Ensembl
Location 15:27497255 - 27497255(+)
Variant Seq T
Ancestral Allele C
Ref Seq C
Minor Allele Frequence 0.150559
Annotation intron_variant; non_coding_transcript_variant
Variant Effect intron_variant(ENST00000333743, ENST00000556642, ENST00000615808, ENST00000554696); non_coding_transcript_variant(ENST00000556642)
SIFT Annotation deleterious
SIFT Variant Effect deleterious(ENST00000333743, ENST00000554696, ENST00000615808, ENST00000555083)
PolyPhen Annotation probably_damaging
PolyPhen Variant Effect probably_damaging(ENST00000333743, ENST00000554696, ENST00000615808, ENST00000555083)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Weak transcription
No. of Marker's Association Results 1 (Positive: 0; Negative: 1; 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
Nelson, E. C.,2014 PTSD P-value=0.012, OR=1.39 P-value=0.012, OR=1.39 Although the association of this SNP is of considerably lowe...... Although the association of this SNP is of considerably lower magnitude, it is interesting to note. More... Non-significant

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
GABRG3 gamma-aminobutyric acid (GABA) A receptor, gamma 3 15q12 1(0/1/0)

SNPs in LD with rs12592749 (count: 3)
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: 3)

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