PTSDgene database

Pathway Enrichment Analysis Protein-Protein Interaction Analysis

SNP Report

Basic Info

Name	rs116647843 dbSNP Ensembl
Location	6:15533609 - 15533609(+)
Variant Seq	A
Ancestral Allele	G
Ref Seq	G
Minor Allele Frequence	0.0071885
Annotation	upstream_gene_variant; intron_variant; NMD_transcript_variant
Variant Effect	upstream_gene_variant(ENST00000514651); intron_variant(ENST00000510395, ENST00000509674, LRG_588t2, ENST00000513680, ENST00000344537, ENST00000506844, ENST00000515875, ENST00000622898, ENST00000462989, LRG_588t1, ENST00000338950, ENST00000511762, ENST00000355917); NMD_transcript_variant(ENST00000510395, ENST00000513680, ENST00000506844, ENST00000515875)
SIFT Annotation	tolerated
SIFT Variant Effect	tolerated(ENST00000509674, ENST00000511762, LRG_588t1, ENST00000355917, ENST00000462989, ENST00000515875, ENST00000338950, LRG_588t2, ENST00000622898, ENST00000344537)
PolyPhen Annotation	benign; possibly_damaging; probably_damaging
PolyPhen Variant Effect	benign(ENST00000511762, ENST00000355917, ENST00000515875); possibly_damaging(ENST00000462989, ENST00000338950, LRG_588t2, ENST00000622898); probably_damaging(ENST00000509674, LRG_588t1, ENST00000344537)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	TF binding region
Chromatin State	Weak transcription;Strong transcription;Enhancers;Genic enhancers;Flanking Active TSS;ZNF genes & repeats
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
Nievergelt, C. M.,2015	PTSD	In 2179 MRS subjects of European descent: P-value=0.06. In 2179 MRS subjects of European descent: P-value=0.06.	No significant result. No significant result.	Non-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)
DTNBP1	dystrobrevin binding protein 1	6p22.3	5(2/3/0)

SNPs in LD with rs116647843 (count: 0)

SNP related eQTL (count: 1)

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