PTSDgene database

SNP Report

Basic Info
Name rs62056779 dbSNP Ensembl
Location 17:45894571 - 45894571(+)
Variant Seq A
Ancestral Allele C
Ref Seq C
Minor Allele Frequence 0.0860623
Annotation 5_prime_UTR_variant; upstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect 5_prime_UTR_variant(ENST00000535772, ENST00000344290, ENST00000351559, ENST00000262410, ENST00000571311, ENST00000340799); upstream_gene_variant(ENST00000446361, ENST00000334239, ENST00000570299, ENST00000624111); intron_variant(ENST00000634876, ENST00000579599, ENST00000579244); NMD_transcript_variant(ENST00000571311); non_coding_transcript_variant(ENST00000634876, ENST00000579599, ENST00000579244)
SIFT Annotation tolerated
SIFT Variant Effect tolerated(ENST00000329196)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000329196)
rSNP? Yes Link in rVarBase
Related Regulatory Elements TF binding region;CpG island;Chromatin interactive region
Chromatin State Bivalent/Poised TSS;Active TSS;Flanking Bivalent TSS/Enh;Flanking Active TSS;Weak transcription;Enhancers;Transcr. at gene 5' nd 3'
No. of Marker's Association Results 0 (Positive: 0; Negative: 0; Trend: 0)
Source LD-proxy

SNP related association results

SNP related genes (count: 5)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
MAPT-IT1 MAPT intronic transcript 1 17q21.31 Mapped by LD-proxy
ARHGAP27 Rho GTPase activating protein 27 17q21.31 rSNP target
MAPT-AS1 MAPT antisense RNA 1 17q21.31 Mapped by Literature SNP, Mapped by LD-proxy, rSNP target
MAPT microtubule associated protein tau 17q21 Mapped by LD-proxy, rSNP target
HEXIM1 hexamethylene bis-acetamide inducible 1 17q21.31 rSNP target

SNPs in LD with rs62056779 (count: 0)

SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
DND1P1 No Adipose Subcutaneous cis GTEx