SNP Report

Basic Info

Name	rs9366890 dbSNP Ensembl
Location	6:35595197 - 35595197(+)
Variant Seq	A
Ancestral Allele	A
Ref Seq	T
Minor Allele Frequence	0.189497
Annotation	intron_variant
Variant Effect	intron_variant(ENST00000542713, ENST00000539068, ENST00000357266, ENST00000536438)
SIFT Annotation	deleterious
SIFT Variant Effect	deleterious(ENST00000357266, ENST00000542713, ENST00000536438, ENST00000539068)
PolyPhen Annotation	possibly_damaging
PolyPhen Variant Effect	possibly_damaging(ENST00000357266, ENST00000542713, ENST00000536438, ENST00000539068)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	Chromatin interactive region
Chromatin State	Weak transcription;Strong transcription;Flanking Active TSS;Genic enhancers;Enhancers;Transcr. at gene 5' nd 3'
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
Nievergelt, C. M.,2015	PTSD	In 2179 MRS subjects of European descent: P-value=0.015. In 2179 MRS subjects of European descent: P-value=0.015.	P-value is nominally significant (P-value<0.05). P-value is nominally significant (P-value<0.05).	Significant

G*E study related association result (count: 1)

Reference	Phenotype	Environment	Statistical Values	Author Comments	Marker's Category
Nievergelt, C. M.,2015	PTSD	Childhood trauma	In 2179 MRS subjects of European descent, gene and childhood...... In 2179 MRS subjects of European descent, gene and childhood trauma interaction: P-value<0.05. More...	It showed a non-significant interaction effect with childhoo...... It showed a non-significant interaction effect with childhood trauma on PTSD. More...	Non-significant

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
FKBP5	FK506 binding protein 5	6p21.31	25(12/13/0)

SNPs in LD with rs9366890 (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]

rs992105	intron_variant(ENST00000536438, ENST00000539068, ENST00000357266, ENST00000542713)	1(0/1/0)	0.8665[EUR]; 0.8949[AFR]

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs7748266	rs9366890	intron_variant	0.9661[EUR]; 0.9523[AMR]
rs7760951	rs9366890	intron_variant	0.8551[EUR]; 0.8171[AMR]
rs7771727	rs9366890 rs992105	intron_variant	0.8261[EUR]
rs3798345	rs9366890 rs3800373	intron_variant	0.8771[EUR]; 0.8012[AMR]
rs7753746	rs9366890	intron_variant	0.9661[EUR]; 0.9288[AMR]
rs2395633	rs9366890	intron_variant	0.9661[EUR]; 0.9288[AMR]
rs6457836	rs9366890	downstream_gene_variant; intron_variant	0.9745[EUR]; 0.9523[AMR]
rs4401662	rs9366890 rs992105	intron_variant	0.9832[EUR]; 0.9208[AFR]; 1.0000[AMR]
rs3800374	rs9366890 rs992105	downstream_gene_variant	0.8082[AFR]
rs6926133	rs9366890 rs992105	downstream_gene_variant; intron_variant	1.0000[EUR]; 0.9367[AFR]; 1.0000[AMR]
rs2143404	rs9366890	intron_variant	0.8509[EUR]
rs4713899	rs9366890	intron_variant	0.9745[EUR]; 0.9523[AMR]
rs10807152	rs9366890 rs992105	downstream_gene_variant; intron_variant	0.9749[EUR]; 0.9527[AFR]; 1.0000[AMR]
rs7746850	rs9366890	intron_variant	0.9745[EUR]; 0.9051[AMR]
rs7740395	rs9366890	intron_variant	0.9092[EUR]

SNP related eQTL (count: 1)

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