PTSDgene database

SNP Report

Basic Info
Name rs72818458 dbSNP Ensembl
Location 10:60040130 - 60040130(+)
Variant Seq A
Ancestral Allele T
Ref Seq T
Minor Allele Frequence 0.0283546
Annotation downstream_gene_variant; intron_variant; non_coding_transcript_variant
Variant Effect downstream_gene_variant(ENST00000616444, ENST00000610321, ENST00000617800); intron_variant(ENST00000503366, ENST00000280772, ENST00000355288, ENST00000373827, ENST00000489505, ENST00000373820, ENST00000480699, ENST00000502769, ENST00000612776, ENST00000618374); non_coding_transcript_variant(ENST00000489505, ENST00000480699)
SIFT Annotation deleterious_-_low_confidence
SIFT Variant Effect deleterious_-_low_confidence(ENST00000612776, ENST00000617800, ENST00000373820, ENST00000502769, ENST00000355288, ENST00000373827, ENST00000280772, ENST00000610321, ENST00000616444, ENST00000503366)
PolyPhen Annotation unknown; benign; probably_damaging
PolyPhen Variant Effect unknown(ENST00000616444); benign(ENST00000355288, ENST00000503366); probably_damaging(ENST00000612776, ENST00000617800, ENST00000373820, ENST00000502769, ENST00000373827, ENST00000280772, ENST00000610321)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Weak transcription;Enhancers;Strong transcription
No. of Marker's Association Results 1 (Positive: 1; Negative: 0; Trend: 0)
Source Literature

SNP related association results
Normal genetic study related association results (count: 1)
Reference Phenotype Statistical Values Author Comments Marker's Category
Logue, M. W.,2013 PTSD OR=0.47, P-value=0.0020, corrected P-value=0.11 OR=0.47, P-value=0.0020, corrected P-value=0.11 The SNP was associated with PTSD at the P-value<0.01 level. The SNP was associated with PTSD at the P-value<0.01 level. Significant

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
ANK3 ankyrin 3, node of Ranvier (ankyrin G) 10q21 2(2/0/0)

SNPs in LD with rs72818458 (count: 1)
The LD data used here is based on 1000 Genome Phase I. LD SNP pairs were selected with a threshold r2<=0.8.

Literature-origin SNPs (count: 0)

LD-proxies (count: 1)

SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
RP11-259G18.3 No Adipose Subcutaneous cis GTEx