PTSDgene database

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