SNP Report

Basic Info

Name	rs4239715 dbSNP Ensembl
Location	20:16157604 - 16157604(+)
Variant Seq	G
Ancestral Allele	A
Ref Seq	A
Minor Allele Frequence	0.474042
Annotation	downstream_gene_variant
SIFT Annotation	deleterious_-_low_confidence; deleterious
SIFT Variant Effect	deleterious_-_low_confidence(ENST00000407045); deleterious(ENST00000378058, ENST00000402914)
PolyPhen Annotation	possibly_damaging; probably_damaging
PolyPhen Variant Effect	possibly_damaging(ENST00000407045); probably_damaging(ENST00000378058, ENST00000402914)
rSNP?	No Link in rVarBase
Related Regulatory Elements	N.A.
Chromatin State	N.A.
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
Almli, L. M.,2015	PTSD Symptoms as measured by the quantitave CAPS scores	In (SBPBC cohort) discovery stage: (sex and top three princ...... In (SBPBC cohort) discovery stage: (sex and top three principal components as covariates) B (SE)=18.00 (3.67), P-value=2.51E-06. More...	None None	Trend

SNP related genes (count: 0)

SNPs in LD with rs4239715 (count: 28)

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: 1)

rs_ID	Annotation	No. of Association Results(Positive/Negative/Trend)	r²[population]

rs6080131		1(0/0/1)	0.8170[EUR]

LD-proxies (count: 27)

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs1407824	rs4239715 rs6080131	downstream_gene_variant	0.8363[EUR]
rs6080143	rs4239715 rs6080131	downstream_gene_variant	0.8749[EUR]; 0.9349[AFR]
rs6080134	rs4239715 rs6080131	downstream_gene_variant	0.8528[EUR]; 0.9032[AFR]
rs6080154	rs4239715	downstream_gene_variant	0.9136[EUR]; 0.8710[AMR]
rs4239716	rs4239715 rs6080131	downstream_gene_variant	1.0000[EUR]; 0.9918[AFR]; 1.0000[AMR]
rs4814439	rs4239715 rs6080131	downstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs6080147	rs4239715 rs6080131	downstream_gene_variant	1.0000[EUR]; 0.9835[AFR]; 0.9778[AMR]
rs4142099	rs4239715 rs6080131	downstream_gene_variant	0.8528[EUR]; 0.8644[AFR]
rs6075015	rs4239715 rs6080131	downstream_gene_variant	0.8582[EUR]; 0.9032[AFR]
rs4814437	rs4239715 rs6080131	downstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs6075019	rs4239715 rs6080131	downstream_gene_variant	0.8528[EUR]; 0.9032[AFR]
rs1323302	rs4239715 rs6080131	downstream_gene_variant	0.8749[EUR]; 0.8955[AFR]
rs6043753	rs4239715 rs6080131	downstream_gene_variant	0.8365[EUR]
rs6110922	rs4239715 rs6080131	downstream_gene_variant	0.9825[EUR]; 0.9510[AFR]; 0.9668[AMR]
rs17726942	rs4239715 rs6080131	downstream_gene_variant	0.8039[EUR]
rs6075017	rs4239715 rs6080131	downstream_gene_variant	0.8473[EUR]; 0.8720[AFR]
rs6110924	rs4239715 rs6080131	downstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 0.9889[AMR]
rs6034400	rs4239715	downstream_gene_variant	0.8374[EUR]
rs6075022	rs4239715	downstream_gene_variant	0.9311[EUR]; 0.8891[AFR]; 0.8927[AMR]
rs6080145	rs4239715	downstream_gene_variant	0.9034[EUR]; 0.8081[AFR]; 0.8441[AMR]
rs2327989	rs4239715 rs6080131	downstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs4813212	rs4239715 rs6080131	downstream_gene_variant	0.8478[EUR]; 0.9032[AFR]
rs6080144	rs4239715 rs6080131	downstream_gene_variant	0.8417[EUR]
rs6075014	rs4239715 rs6080131	downstream_gene_variant	0.8200[EUR]
rs4814440	rs4239715 rs6080131	downstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs6075018	rs4239715 rs6080131	downstream_gene_variant	0.8528[EUR]; 0.9032[AFR]
rs6080148	rs4239715 rs6080131	downstream_gene_variant	0.9883[EUR]; 1.0000[AFR]; 0.9889[AMR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
RP11-707O23.5	No	Adipose Subcutaneous	cis	GTEx