SNP Report

Basic Info

Name	rs973002 dbSNP Ensembl
Location	7:30659288 - 30659288(+)
Variant Seq	A
Ancestral Allele	A
Ref Seq	G
Minor Allele Frequence	0.216853
Annotation	intron_variant; NMD_transcript_variant
Variant Effect	intron_variant(ENST00000506074, ENST00000341843, ENST00000348438, ENST00000471646, ENST00000452278); NMD_transcript_variant(ENST00000452278)
SIFT Annotation	tolerated
SIFT Variant Effect	tolerated(ENST00000506074, ENST00000341843, ENST00000348438, ENST00000471646)
PolyPhen Annotation	benign
PolyPhen Variant Effect	benign(ENST00000506074, ENST00000341843, ENST00000348438, ENST00000471646)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Weak transcription;Enhancers
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
Wolf, E. J.,2013	PTSD diagnosis	OR=0.65, 95% CI: 0.46-0.92, P-value uncorrected=0.01, P-valu...... OR=0.65, 95% CI: 0.46-0.92, P-value uncorrected=0.01, P-value corrected=0.21 More...	It showed nominally significant associations with lifetime P...... It showed nominally significant associations with lifetime PTSD diagnosis, but didn't pass the multiple testing. More...	Significant

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
CRHR2	corticotropin releasing hormone receptor 2	7p14.3	2(2/0/0)

SNPs in LD with rs973002 (count: 9)

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]
rs38488	rs973002	downstream_gene_variant; non_coding_transcript_exon_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.8891[EUR]
rs2709787	rs973002	downstream_gene_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.8733[EUR]
rs38473	rs973002	downstream_gene_variant; non_coding_transcript_exon_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.8309[EUR]
rs38498	rs973002	upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.8383[EUR]
rs38485	rs973002	downstream_gene_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.8891[EUR]
rs38478	rs973002	downstream_gene_variant; non_coding_transcript_exon_variant; intron_variant; non_coding_transcript_variant	0.8387[EUR]
rs2270007	rs973002	intron_variant; NMD_transcript_variant	0.9913[EUR]
rs38462	rs973002	downstream_gene_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.8008[EUR]
rs2709788	rs973002	downstream_gene_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.8579[EUR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
LRRC37A4P	No	Adipose Subcutaneous	cis	GTEx