PTSDgene database

SNP Report

Basic Info
Name rs887242 dbSNP Ensembl
Location 11:17999769 - 17999769(+)
Variant Seq C
Ancestral Allele T
Ref Seq T
Minor Allele Frequence 0.301318
Annotation downstream_gene_variant; upstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect downstream_gene_variant(ENST00000524716, ENST00000525523); upstream_gene_variant(ENST00000529440, ENST00000532546); intron_variant(ENST00000532265, ENST00000529728, ENST00000525422, ENST00000525920, ENST00000265965, ENST00000529151, ENST00000533328, ENST00000527494, ENST00000530925, ENST00000530613, ENST00000532212, ENST00000528200, ENST00000532389); NMD_transcript_variant(ENST00000525422, ENST00000533328, ENST00000527494, ENST00000530925); non_coding_transcript_variant(ENST00000532212)
SIFT Annotation deleterious
SIFT Variant Effect deleterious(ENST00000527494, ENST00000532389, ENST00000525422, ENST00000529151, ENST00000532265, ENST00000265965, ENST00000528200, ENST00000525920, ENST00000529728, ENST00000530613)
PolyPhen Annotation benign; possibly_damaging
PolyPhen Variant Effect benign(ENST00000527494, ENST00000525422, ENST00000532265, ENST00000528200, ENST00000525920, ENST00000529728); possibly_damaging(ENST00000532389, ENST00000529151, ENST00000265965, ENST00000530613)
rSNP? Yes Link in rVarBase
Related Regulatory Elements Chromatin interactive region
Chromatin State Weak transcription;Strong transcription;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 rs887242 (count: 0)

SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
LRRC37A4P No Adipose Subcutaneous cis GTEx