SNP Report

Basic Info

Name	rs1124492 dbSNP Ensembl
Location	11:113411553 - 113411553(+)
Variant Seq	A
Ancestral Allele	C
Ref Seq	C
Minor Allele Frequence	0.29992
Annotation	downstream_gene_variant; non_coding_transcript_exon_variant; intron_variant; non_coding_transcript_variant
Variant Effect	downstream_gene_variant(ENST00000539420, ENST00000535984, ENST00000540600); non_coding_transcript_exon_variant(ENST00000546284); intron_variant(ENST00000544518, ENST00000542968, ENST00000346454, ENST00000538967, ENST00000362072); non_coding_transcript_variant(ENST00000546284)
SIFT Annotation	tolerated
SIFT Variant Effect	tolerated(ENST00000542968, ENST00000346454, ENST00000538967, ENST00000362072, ENST00000544518)
PolyPhen Annotation	benign
PolyPhen Variant Effect	benign(ENST00000542968, ENST00000346454, ENST00000538967, ENST00000362072, ENST00000544518)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	lncRNA
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
Solovieff, N.,2014	PTSD diagnosis	P-value=0.266 P-value=0.266	Achieved nominal levels of significance with PTSD diagnosis,...... Achieved nominal levels of significance with PTSD diagnosis, although was not significant after correction for multiple testing More...	Non-significant

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
DRD2	dopamine receptor D2	11q23.2	18(11/7/0)

SNPs in LD with rs1124492 (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	Annotation	No. of Association Results(Positive/Negative/Trend)	r²[population]
rs4436578	intron_variant(ENST00000346454, ENST00000542616, ENST00000543292, ENST00000362072, ENST00000540600); non_coding_transcript_variant(ENST00000540600)	1(1/0/0)	0.8637[EUR]

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs4590907	rs1124492 rs6279	upstream_gene_variant; intron_variant	0.8891[EUR]
rs4620755	rs1124492 rs4436578	intron_variant; non_coding_transcript_variant	0.9232[EUR]
rs61492892	rs1124492 rs6279	upstream_gene_variant; intron_variant	0.8891[EUR]
rs12224538	rs1124492 rs6279	upstream_gene_variant; intron_variant	0.8891[EUR]
rs17115583	rs1124492 rs4436578	intron_variant; non_coding_transcript_variant	0.9232[EUR]
rs10891542	rs1124492	upstream_gene_variant; intron_variant	0.8539[EUR]
rs10891545	rs1124492	downstream_gene_variant; upstream_gene_variant	0.8625[EUR]
rs4938014	rs1124492 rs6279	intron_variant; NMD_transcript_variant	0.8891[EUR]

SNP related eQTL (count: 1)

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