SNP Report

Basic Info

Name	rs3213207 dbSNP Ensembl
Location	6:15627871 - 15627871(+)
Variant Seq	C
Ancestral Allele	T
Ref Seq	T
Minor Allele Frequence	0.0591054
Annotation	intron_variant; NMD_transcript_variant
Variant Effect	intron_variant(ENST00000344537, LRG_588t2, ENST00000510395, ENST00000355917, ENST00000513680, ENST00000511762, LRG_588t1, ENST00000622898, ENST00000515875, ENST00000338950, ENST00000506844); NMD_transcript_variant(ENST00000510395, ENST00000513680, ENST00000515875, ENST00000506844)
SIFT Annotation	deleterious; tolerated
SIFT Variant Effect	deleterious(ENST00000344537, LRG_588t1, ENST00000622898, ENST00000355917, ENST00000338950, LRG_588t2); tolerated(ENST00000515875, ENST00000511762)
PolyPhen Annotation	benign; possibly_damaging
PolyPhen Variant Effect	benign(ENST00000344537, ENST00000515875, LRG_588t1, ENST00000355917, ENST00000338950, ENST00000511762, LRG_588t2); possibly_damaging(ENST00000622898)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Weak transcription;Enhancers;Flanking Active TSS
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 severity	P-value=0.434 P-value=0.434	Achieved nominal levels of significance with PTSD severity, ...... Achieved nominal levels of significance with PTSD severity, 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)
DTNBP1	dystrobrevin binding protein 1	6p22.3	5(2/3/0)

SNPs in LD with rs3213207 (count: 12)

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]
rs58428316	rs3213207	intron_variant; NMD_transcript_variant	1.0000[EUR]
rs55871830	rs3213207	intron_variant; NMD_transcript_variant	0.9040[EUR]
rs62395004	rs3213207	intron_variant; NMD_transcript_variant	1.0000[EUR]
rs56112820	rs3213207	intron_variant; NMD_transcript_variant	0.8452[EUR]
rs62397471	rs3213207	intron_variant; NMD_transcript_variant	0.9278[EUR]
rs62396144	rs3213207	upstream_gene_variant; intron_variant; NMD_transcript_variant	0.8334[EUR]
rs62397469	rs3213207	upstream_gene_variant; intron_variant; NMD_transcript_variant	0.8569[EUR]
rs56034221	rs3213207	intron_variant; NMD_transcript_variant	0.9637[EUR]
rs62397464	rs3213207	intron_variant; NMD_transcript_variant	0.8926[EUR]
rs62397467	rs3213207	intron_variant; NMD_transcript_variant	0.8215[EUR]
rs60822608	rs3213207	intron_variant; NMD_transcript_variant	1.0000[EUR]
rs56193326	rs3213207	intron_variant; NMD_transcript_variant	0.9040[EUR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
CRHR1	Yes	Adipose Subcutaneous	cis	GTEx