PTSDgene database

SNP Report

Basic Info
Name rs7604404 dbSNP Ensembl
Location 2:172443590 - 172443590(+)
Variant Seq A
Ancestral Allele A
Ref Seq C
Minor Allele Frequence 0.359824
Annotation intron_variant
Variant Effect intron_variant(ENST00000442250, ENST00000458358, ENST00000409080, ENST00000409532, ENST00000412899, ENST00000264107)
SIFT Annotation tolerated
SIFT Variant Effect tolerated(ENST00000409080, ENST00000264107, ENST00000458358, ENST00000442250)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000409080, ENST00000264107, ENST00000458358, ENST00000442250)
rSNP? Yes Link in rVarBase
Related Regulatory Elements Chromatin interactive region;lncRNA
Chromatin State Enhancers;Weak transcription;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
Nelson, E. C.,2014 PTSD P-value=0.0063, OR=0.76 P-value=0.0063, OR=0.76 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)
ITGA6 integrin subunit alpha 6 2q31.1 1(0/1/0)

SNPs in LD with rs7604404 (count: 7)
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: 7)

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