PTSDgene database

SNP Report

Basic Info
Name rs148139959 dbSNP Ensembl
Location 4:46370908 - 46370908(+)
Variant Seq A
Ancestral Allele C
Ref Seq C
Minor Allele Frequence 0.00279553
Annotation intron_variant; NMD_transcript_variant
Variant Effect intron_variant(ENST00000507069, ENST00000381620, ENST00000540012, ENST00000507460, ENST00000514090, ENST00000514193, ENST00000503806, ENST00000630416, ENST00000515082, ENST00000510861, ENST00000510233, ENST00000506961, ENST00000356504, ENST00000513005); NMD_transcript_variant(ENST00000514193, ENST00000630416, ENST00000510233, ENST00000513005)
SIFT Annotation deleterious
SIFT Variant Effect deleterious(ENST00000513005, ENST00000507069, ENST00000515082, ENST00000507460, ENST00000510233, ENST00000506961, ENST00000356504, ENST00000514090, ENST00000630416, ENST00000381620, ENST00000503806, ENST00000510861, ENST00000514193)
PolyPhen Annotation probably_damaging
PolyPhen Variant Effect probably_damaging(ENST00000513005, ENST00000507069, ENST00000515082, ENST00000507460, ENST00000510233, ENST00000506961, ENST00000356504, ENST00000514090, ENST00000630416, ENST00000381620, ENST00000503806, ENST00000510861, ENST00000514193)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Weak transcription
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=0.024. In 2179 MRS subjects of European descent: P-value=0.024. 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: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
GABRA2 gamma-aminobutyric acid (GABA) A receptor, alpha 2 4p12 3(1/2/0)

SNPs in LD with rs148139959 (count: 0)

SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
CRHR1-IT1 Yes Adipose Subcutaneous cis GTEx