SNP Report

Basic Info

Name	rs4792887 dbSNP Ensembl
Location	17:45799654 - 45799654(+)
Variant Seq	T
Ancestral Allele	C
Ref Seq	C
Minor Allele Frequence	0.129992
Annotation	non_coding_transcript_exon_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect	non_coding_transcript_exon_variant(ENST00000634876); intron_variant(ENST00000634540, ENST00000577353, ENST00000398285, ENST00000293493, ENST00000347197, ENST00000587305, ENST00000339069, ENST00000582766, ENST00000352855, ENST00000314537, ENST00000619154); NMD_transcript_variant(ENST00000347197); non_coding_transcript_variant(ENST00000587305, ENST00000634876, ENST00000582766)
SIFT Annotation	deleterious; tolerated
SIFT Variant Effect	deleterious(ENST00000430334); tolerated(ENST00000430334, ENST00000581448, ENST00000584420, ENST00000589780)
PolyPhen Annotation	benign; possibly_damaging
PolyPhen Variant Effect	benign(ENST00000430334, ENST00000581448, ENST00000584420, ENST00000589780); possibly_damaging(ENST00000430334, ENST00000584420)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Weak transcription
No. of Marker's Association Results	2 (Positive: 1; Negative: 1; Trend: 0)
Source	Literature

SNP related association results

Normal genetic study related association results (count: 2)

Reference	Phenotype	Statistical Values	Author Comments	Marker's Category
White, S.,2013	Post-hurricane PTSD diagnosis	OR=0.18, P-value=.007 OR=0.18, P-value=.007	Rs4792887 was not significantly related to diagnostic status Rs4792887 was not significantly related to diagnostic status	Non-significant
White, S.,2013	Post-hurricane PTSD symptoms	In EA sunsamples: B=-0.31, t=-3.22, P-value=0.001 In EA sunsamples: B=-0.31, t=-3.22, P-value=0.001	Nominally associated with higher post-hurricane PTSD symptom...... Nominally associated with higher post-hurricane PTSD symptoms, after a Bonferroni adjustment for multiple testing was employed, remained significant. More...	Significant

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
CRHR1	corticotropin releasing hormone receptor 1	17q21.31	12(6/6/0)
MAPT-AS1	MAPT antisense RNA 1	17q21.31	Mapped by Literature SNP, Mapped by LD-proxy, rSNP target

SNPs in LD with rs4792887 (count: 14)

The LD data used here is based on 1000 Genome Phase I. LD SNP pairs were selected with a threshold r²<=0.8.

Literature-origin SNPs (count: 1)

rs_ID	Annotation	No. of Association Results(Positive/Negative/Trend)	r²[population]

rs12936181	downstream_gene_variant(ENST00000634876); intron_variant(ENST00000352855, ENST00000339069, ENST00000634540, ENST00000619154, ENST00000347197, ENST00000293493, ENST00000577353, ENST00000587305, ENST00000314537, ENST00000398285, ENST00000582766); NMD_transcript_variant(ENST00000347197); non_coding_transcript_variant(ENST00000587305, ENST00000582766)	1(0/1/0)	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]

LD-proxies (count: 13)

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs34174655	rs12936181 rs4792887	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.8546[EUR]
rs12944996	rs12936181 rs4792887	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs35785975	rs12936181 rs4792887	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 0.8938[AFR]; 0.9658[AMR]
rs4792884	rs12936181 rs4792887	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 0.9497[AFR]; 1.0000[AMR]
rs16969853	rs12936181 rs4792887	upstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 0.9492[AFR]; 1.0000[AMR]
rs35131568	rs12936181 rs4792887	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.9461[EUR]; 0.9914[AFR]; 1.0000[AMR]
rs4792888	rs12936181 rs4792887	non_coding_transcript_exon_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 0.9578[AFR]; 1.0000[AMR]
rs16940646	rs12936181 rs4792887	upstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 0.8196[AFR]; 0.9648[AMR]
rs4792883	rs12936181 rs4792887	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs4792886	rs12936181 rs4792887	non_coding_transcript_exon_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 0.9243[AFR]; 0.9648[AMR]
rs12945673	rs12936181 rs4792887	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 0.9829[AFR]; 1.0000[AMR]
rs12942994	rs12936181 rs4792887	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.9461[EUR]; 0.9914[AFR]; 1.0000[AMR]
rs4792885	rs12936181 rs4792887	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.8705[EUR]; 0.9572[AFR]; 0.9035[AMR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
DND1P1	No	Adipose Subcutaneous	cis	GTEx