PTSDgene database

Pathway Enrichment Analysis Protein-Protein Interaction Analysis

SNP Report

Basic Info

Name	rs3741200 dbSNP Ensembl
Location	11:18013149 - 18013149(+)
Variant Seq	G
Ancestral Allele	G
Ref Seq	A
Minor Allele Frequence	0.452875
Annotation	downstream_gene_variant; 5_prime_UTR_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant
Variant Effect	downstream_gene_variant(ENST00000250018); 5_prime_UTR_variant(ENST00000265965); upstream_gene_variant(ENST00000530925, ENST00000524716, ENST00000533328, ENST00000530613, ENST00000527494, ENST00000532265, ENST00000530951, ENST00000532212, ENST00000532389, ENST00000525422, ENST00000529728, ENST00000528200); intron_variant(ENST00000525523); non_coding_transcript_variant(ENST00000525523)
SIFT Annotation	tolerated_-_low_confidence; deleterious_-_low_confidence
SIFT Variant Effect	tolerated_-_low_confidence(ENST00000265965); deleterious_-_low_confidence(ENST00000525422, ENST00000528200)
PolyPhen Annotation	unknown; benign
PolyPhen Variant Effect	unknown(ENST00000524716); benign(ENST00000525422, ENST00000528200, ENST00000265965)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	TF binding region;CpG island;Chromatin interactive region
Chromatin State	Active TSS;Flanking Active TSS;Weak transcription;Bivalent/Poised TSS
No. of Marker's Association Results	0 (Positive: 0; Negative: 0; Trend: 0)
Source	LD-proxy

SNP related association results

SNP related genes (count: 4)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
PIK3C2A	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	11p15.5-p14	rSNP target
SERGEF	secretion regulating guanine nucleotide exchange factor	11p14.3	Mapped by LD-proxy, rSNP target
IMPDH1	IMP (inosine 5'-monophosphate) dehydrogenase 1	7q31.3-q32	rSNP target
TPH1	tryptophan hydroxylase 1	11p15.3-p14	5(1/4/0)

SNPs in LD with rs3741200 (count: 0)

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
LRRC37A4P	No	Adipose Subcutaneous	cis	GTEx