SNP Report

Basic Info

Name	rs173365 dbSNP Ensembl
Location	17:45823708 - 45823708(+)
Variant Seq	G
Ancestral Allele	A
Ref Seq	A
Minor Allele Frequence	0.348043
Annotation	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect	intron_variant(ENST00000293493, ENST00000583888, ENST00000352855, ENST00000398285, ENST00000619154, ENST00000339069, ENST00000314537, ENST00000580955, ENST00000347197, ENST00000577353, ENST00000634540, ENST00000634876, ENST00000582766); NMD_transcript_variant(ENST00000583888, ENST00000580955, ENST00000347197); non_coding_transcript_variant(ENST00000634876, ENST00000582766)
SIFT Annotation	deleterious_-_low_confidence; deleterious; tolerated
SIFT Variant Effect	deleterious_-_low_confidence(ENST00000619154); deleterious(ENST00000339069, ENST00000293493, ENST00000398285, ENST00000634540); tolerated(ENST00000314537, ENST00000352855, ENST00000577353)
PolyPhen Annotation	unknown; benign; possibly_damaging
PolyPhen Variant Effect	unknown(ENST00000619154); benign(ENST00000339069, ENST00000293493, ENST00000352855, ENST00000398285, ENST00000634540, ENST00000577353); possibly_damaging(ENST00000314537)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Enhancers;Bivalent Enhancer;Weak transcription
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
White, S.,2013	Post-hurricane PTSD symptoms	In EA sunsamples: B=-0.77, t=-1.99, P-value=0.047 In EA sunsamples: B=-0.77, t=-1.99, P-value=0.047	Nominally associated with higher post-hurricane PTSD symptom...... Nominally associated with higher post-hurricane PTSD symptoms 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 rs173365 (count: 6)

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]

rs17689966	downstream_gene_variant(ENST00000580955, ENST00000582766); upstream_gene_variant(ENST00000535778, ENST00000580876); intron_variant(ENST00000583888, ENST00000619154, ENST00000398285, ENST00000634540, ENST00000634876, ENST00000581479, ENST00000293493, ENST00000352855, ENST00000339069, ENST00000314537, ENST00000347197, ENST00000577353); NMD_transcript_variant(ENST00000583888, ENST00000347197); non_coding_transcript_variant(ENST00000634876, ENST00000581479)	1(1/0/0)	0.9946[EUR]; 0.9441[AMR]

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs242944	rs173365 rs17689966	missense_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.9892[EUR]; 0.8905[AMR]
rs242947	rs173365 rs17689966	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.9892[EUR]; 0.8905[AMR]
rs242951	rs173365 rs17689966	downstream_gene_variant; upstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.9840[EUR]; 0.9774[AMR]
rs242937	rs173365 rs17689966	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs242948	rs173365 rs17689966	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.9839[EUR]; 0.9009[AMR]

SNP related eQTL (count: 1)

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