PTSDgene database

SNP Report

Basic Info
Name rs1800479 dbSNP Ensembl
Location 2:21004511 - 21004511(+)
Variant Seq G
Ancestral Allele C
Ref Seq C
Minor Allele Frequence 0.124401
Annotation upstream_gene_variant; intron_variant
Variant Effect upstream_gene_variant(ENST00000567376); intron_variant(ENST00000616098, ENST00000233242)
SIFT Annotation deleterious
SIFT Variant Effect deleterious(ENST00000233242)
PolyPhen Annotation possibly_damaging
PolyPhen Variant Effect possibly_damaging(ENST00000233242)
rSNP? Yes Link in rVarBase
Related Regulatory Elements TF binding region
Chromatin State Weak transcription;Strong transcription;ZNF genes & repeats;Genic enhancers
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
Duan, Z.,2015 PTSD diagnosis Allele dose analysis model: P-value=0.46; Dominant effect: ...... Allele dose analysis model: P-value=0.46; Dominant effect: P-value=0.42; Recessive effect: P-value=0.32. More... No significant results. No significant results. Non-significant

SNP related genes (count: 2)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
APOB apolipoprotein B 2p24-p23 1(0/0/1)
DRD2 dopamine receptor D2 11q23.2 18(11/7/0)

SNPs in LD with rs1800479 (count: 10)
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: 10)

SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
RP11-707O23.5 No Adipose Subcutaneous cis GTEx