SNP Report

Basic Info

Name	rs16904179 dbSNP Ensembl
Location	8:129946705 - 129946705(+)
Variant Seq	A
Ancestral Allele	G
Ref Seq	G
Minor Allele Frequence	0.132388
Annotation	intron_variant; non_coding_transcript_variant
Variant Effect	intron_variant(ENST00000518283, ENST00000519020, ENST00000522361, ENST00000523288, ENST00000517654, ENST00000518879, ENST00000518167, ENST00000523993, ENST00000521223, ENST00000523509, ENST00000519142, ENST00000401979, ENST00000519110, ENST00000522702, ENST00000520146, ENST00000517672); non_coding_transcript_variant(ENST00000523288, ENST00000518879, ENST00000521223, ENST00000522702, ENST00000520146)
SIFT Annotation	deleterious_-_low_confidence
SIFT Variant Effect	deleterious_-_low_confidence(ENST00000615041)
PolyPhen Annotation	benign
PolyPhen Variant Effect	benign(ENST00000615041)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	Chromatin interactive region
Chromatin State	Enhancers;Weak transcription;Strong transcription;Bivalent Enhancer
No. of Marker's Association Results	1 (Positive: 0; Negative: 0; Trend: 1)
Source	Literature

SNP related association results

Normal genetic study related association results (count: 1)

Reference	Phenotype	Statistical Values	Author Comments	Marker's Category
Xie, P.,2013	Lifetime PTSD	Whole Cohort of African Americans: in GWAS,P-value=5.42E-06,...... Whole Cohort of African Americans: in GWAS,P-value=5.42E-06,in replication,P-value=NT,in combined, P-value=NT More...	No significant signals were observed in the African American...... No significant signals were observed in the African American part of the sample. More...	Trend

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
FAM49B	family with sequence similarity 49 member B	8q24.21	1(0/0/1)

SNPs in LD with rs16904179 (count: 1)

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]
rs4733750	rs16904179	intron_variant; non_coding_transcript_variant	0.8819[AMR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
RP11-259G18.3	No	Adipose Subcutaneous	cis	GTEx