PTSDgene database

Pathway Enrichment Analysis Protein-Protein Interaction Analysis

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