PTSDgene database

Pathway Enrichment Analysis Protein-Protein Interaction Analysis

SNP Report

Basic Info

Name	rs172424 dbSNP Ensembl
Location	11:18001403 - 18001403(+)
Variant Seq	G
Ancestral Allele	T
Ref Seq	T
Minor Allele Frequence	0.46266
Annotation	upstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect	upstream_gene_variant(ENST00000529151); intron_variant(ENST00000527494, ENST00000525920, ENST00000533328, ENST00000265965, ENST00000530925, ENST00000532389, ENST00000529728, ENST00000525523, ENST00000532265, ENST00000528200, ENST00000532212, ENST00000530613, ENST00000525422, ENST00000524716); NMD_transcript_variant(ENST00000527494, ENST00000533328, ENST00000530925, ENST00000525422, ENST00000524716); non_coding_transcript_variant(ENST00000525523, ENST00000532212)
SIFT Annotation	deleterious
SIFT Variant Effect	deleterious(ENST00000265965, ENST00000528200, ENST00000525422)
PolyPhen Annotation	unknown; probably_damaging
PolyPhen Variant Effect	unknown(ENST00000533328); probably_damaging(ENST00000265965, ENST00000528200, ENST00000525422)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	TF binding region
Chromatin State	Weak transcription;Strong transcription;Enhancers;Genic enhancers
No. of Marker's Association Results	0 (Positive: 0; Negative: 0; Trend: 0)
Source	LD-proxy

SNP related association results

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
SERGEF	secretion regulating guanine nucleotide exchange factor	11p14.3	Mapped by LD-proxy, rSNP target

SNPs in LD with rs172424 (count: 0)

SNP related eQTL (count: 1)

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