SNP Report

Basic Info

Name	rs12805897 dbSNP Ensembl
Location	11:113453571 - 113453571(+)
Variant Seq	A
Ancestral Allele	G
Ref Seq	G
Minor Allele Frequence	0.0493211
Annotation	upstream_gene_variant; intron_variant; non_coding_transcript_variant
Variant Effect	upstream_gene_variant(ENST00000577203); intron_variant(ENST00000542616, ENST00000346454, ENST00000540600, ENST00000362072); non_coding_transcript_variant(ENST00000540600)
SIFT Annotation	tolerated
SIFT Variant Effect	tolerated(ENST00000362072, ENST00000543292, ENST00000538967, ENST00000544518, ENST00000542968, ENST00000346454)
PolyPhen Annotation	benign
PolyPhen Variant Effect	benign(ENST00000362072, ENST00000543292, ENST00000538967, ENST00000544518, ENST00000542968, ENST00000346454)
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
Nelson, E. C.,2014	PTSD	P-value=0.00029, OR=1.63 P-value=0.00029, OR=1.63	The association observed for rs12805897 is likely due to its...... The association observed for rs12805897 is likely due to its high linkage disequilibrium with rs12364283. More...	Non-significant

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
MIR4301	microRNA 4301	11	Mapped by Literature SNP, Mapped by LD-proxy
DRD2	dopamine receptor D2	11q23.2	18(11/7/0)

SNPs in LD with rs12805897 (count: 2)

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]
rs12364283	upstream_gene_variant(ENST00000346454, ENST00000362072, ENST00000542616, ENST00000540600)	1(1/0/0)	0.9628[EUR]

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs4254099	rs12364283 rs12805897	upstream_gene_variant	0.8543[EUR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
TMPRSS5	No	Adipose Subcutaneous	cis	GTEx