PTSDgene database

SNP Report

Basic Info
Name rs2299623 dbSNP Ensembl
Location 11:18009745 - 18009745(+)
Variant Seq A
Ancestral Allele A
Ref Seq G
Minor Allele Frequence 0.451278
Annotation intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect intron_variant(ENST00000533328, ENST00000528200, ENST00000530613, ENST00000532389, ENST00000530925, ENST00000529728, ENST00000530951, ENST00000524716, ENST00000525523, ENST00000525422, ENST00000265965, ENST00000532212, ENST00000527494, ENST00000532265); NMD_transcript_variant(ENST00000533328, ENST00000530925, ENST00000524716, ENST00000525422, ENST00000527494); non_coding_transcript_variant(ENST00000530951, ENST00000525523, ENST00000532212)
SIFT Annotation tolerated_-_low_confidence; tolerated
SIFT Variant Effect tolerated_-_low_confidence(ENST00000528200); tolerated(ENST00000265965, ENST00000525422)
PolyPhen Annotation unknown; benign
PolyPhen Variant Effect unknown(ENST00000524716); benign(ENST00000528200, ENST00000265965, ENST00000525422)
rSNP? Yes Link in rVarBase
Related Regulatory Elements Chromatin interactive region
Chromatin State Weak transcription
No. of Marker's Association Results 0 (Positive: 0; Negative: 0; Trend: 0)
Source LD-proxy

SNP related association results

SNP related genes (count: 2)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
SAA3P serum amyloid A3 pseudogene 11p15.1 rSNP target
SERGEF secretion regulating guanine nucleotide exchange factor 11p14.3 Mapped by LD-proxy, rSNP target

SNPs in LD with rs2299623 (count: 0)

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