SNP Report

Basic Info

Name	rs2572096 dbSNP Ensembl
Location	6:99003195 - 99003195(+)
Variant Seq	C
Ancestral Allele	T
Ref Seq	T
Minor Allele Frequence	0.157149
Annotation	upstream_gene_variant
SIFT Annotation	deleterious_-_low_confidence
SIFT Variant Effect	deleterious_-_low_confidence(ENST00000229971, ENST00000369244)
PolyPhen Annotation	benign
PolyPhen Variant Effect	benign(ENST00000229971, ENST00000369244)
rSNP?	No Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Inactive region
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
Xie, P.,2013	Lifetime PTSD	Trauma Exposed African Americans: in GWAS,P-value=7.07E-06,i...... Trauma Exposed African Americans: in GWAS,P-value=7.07E-06,in replication,P-value=NT,in combined, P-value=NT. More...	No significant signals were observed in the African American...... No significant signals were observed in the African American part of the sample. Genome-wide association study analyses restricted to trauma-exposed individuals yielded very similar results. More...	Trend

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
FBXL4	F-box and leucine-rich repeat protein 4	6q16.1-q16.3	1(0/0/1)

SNPs in LD with rs2572096 (count: 16)

The LD data used here is based on 1000 Genome Phase I. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs2572116	rs2572096	upstream_gene_variant	1.0000[EUR]; 0.8515[AMR]
rs2747731	rs2572096	upstream_gene_variant	0.8970[AMR]
rs9402350	rs2572096	upstream_gene_variant	1.0000[EUR]; 0.9253[AFR]; 0.8515[AMR]
rs9388909	rs2572096	upstream_gene_variant	0.8970[AMR]
rs1073620	rs2572096	upstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs9402371	rs2572096	upstream_gene_variant	0.9797[EUR]
rs2747736	rs2572096	upstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs12173555	rs2572096	upstream_gene_variant	0.9797[EUR]
rs2747738	rs2572096	upstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 0.8515[AMR]
rs2092774	rs2572096	upstream_gene_variant	1.0000[EUR]; 0.9253[AFR]; 0.8515[AMR]
rs714256	rs2572096	upstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs2572109	rs2572096	upstream_gene_variant	0.8970[AMR]
rs2572095	rs2572096	upstream_gene_variant	0.8594[EUR]; 0.8094[AFR]; 0.9496[AMR]
rs2572099	rs2572096	upstream_gene_variant	0.8970[AMR]
rs2747733	rs2572096	upstream_gene_variant	0.8970[AMR]
rs2180048	rs2572096	upstream_gene_variant	1.0000[EUR]; 0.8387[AFR]; 0.8515[AMR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
CRHR1	Yes	Adipose Subcutaneous	cis	GTEx