SNP Report

Basic Info

Name	rs7959232 dbSNP Ensembl
Location	12:117238893 - 117238893(+)
Variant Seq	G
Ancestral Allele	G
Ref Seq	A
Minor Allele Frequence	0.453075
Annotation	intron_variant
Variant Effect	intron_variant(ENST00000618760, ENST00000317775, ENST00000344089, ENST00000338101)
SIFT Annotation	deleterious
SIFT Variant Effect	deleterious(ENST00000618760, ENST00000344089, ENST00000317775, ENST00000338101)
PolyPhen Annotation	benign; probably_damaging
PolyPhen Variant Effect	benign(ENST00000317775); probably_damaging(ENST00000618760, ENST00000344089, ENST00000338101)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Weak transcription
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
Bruenig, D.,2017(b)	CAPS score	ANOVA: P-value>0.05 ANOVA: P-value>0.05	This SNP was not associated with PTSD severity. This SNP was not associated with PTSD severity.	Non-significant

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
NOS1	nitric oxide synthase 1	12q24.22	1(1/0/0)

SNPs in LD with rs7959232 (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	Annotation	No. of Association Results(Positive/Negative/Trend)	r²[population]

rs11068428	missense_variant(ENST00000338101, ENST00000618760); intron_variant(ENST00000344089, ENST00000317775)	1(0/1/0)	0.8555[EUR]
rs2291908	upstream_gene_variant(ENST00000548625); intron_variant(ENST00000317775, ENST00000338101, ENST00000344089, ENST00000618760)	1(0/1/0)	0.8718[EUR]

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs904658	rs7959232 rs2291908 rs11068428	intron_variant	0.9543[EUR]
rs2006789	rs7959232 rs2291908 rs11068428	intron_variant	0.9487[EUR]
rs10774908	rs7959232	intron_variant	0.9206[EUR]
rs9658420	rs7959232 rs2291908 rs11068428	intron_variant	0.8450[EUR]
rs2293046	rs7959232 rs2291908 rs11068428	intron_variant	0.9543[EUR]
rs10850804	rs7959232 rs2291908 rs11068428	non_coding_transcript_exon_variant; intron_variant; non_coding_transcript_variant	0.8608[EUR]
rs3741476	rs7959232 rs2291908 rs11068428	intron_variant	0.9487[EUR]
rs9658498	rs7959232 rs2291908 rs11068428	intron_variant	0.9543[EUR]
rs1047735	rs7959232 rs2291908 rs11068428	synonymous_variant; upstream_gene_variant	0.8611[EUR]
rs7303718	rs7959232 rs2291908	intron_variant	0.9431[EUR]
rs11068426	rs7959232 rs2291908 rs11068428	intron_variant	0.8555[EUR]
rs12830203	rs7959232 rs2291908 rs11068428	upstream_gene_variant; intron_variant	0.8553[EUR]
rs10850805	rs7959232 rs2291908 rs11068428	intron_variant	0.8503[EUR]
rs10774910	rs7959232 rs2291908 rs11068428	intron_variant	0.9657[EUR]

SNP related eQTL (count: 1)

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