PTSDgene database

SNP Report

Basic Info
Name rs7200719 dbSNP Ensembl
Location 16:10000689 - 10000689(+)
Variant Seq T
Ancestral Allele T
Ref Seq C
Minor Allele Frequence 0.0603035
Annotation intron_variant; non_coding_transcript_variant
Variant Effect intron_variant(ENST00000566670, ENST00000562109, ENST00000566683, ENST00000568247, ENST00000330684, ENST00000396573); non_coding_transcript_variant(ENST00000566670, ENST00000566683, ENST00000568247)
SIFT Annotation tolerated
SIFT Variant Effect tolerated(ENST00000396573, ENST00000330684, ENST00000396575, ENST00000562109, ENST00000535259)
PolyPhen Annotation benign; probably_damaging
PolyPhen Variant Effect benign(ENST00000396573, ENST00000330684, ENST00000562109, ENST00000535259); probably_damaging(ENST00000396575)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Weak transcription
No. of Marker's Association Results 1 (Positive: 0; Negative: 1; 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
Nelson, E. C.,2014 PTSD P-value=0.014, OR=1.35 P-value=0.014, OR=1.35 Although the association of this SNP is of considerably lowe...... Although the association of this SNP is of considerably lower magnitude, it is interesting to note. More... Non-significant

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
GRIN2A glutamate receptor, ionotropic, N-methyl D-aspartate 2A 16p13.2 1(0/1/0)

SNPs in LD with rs7200719 (count: 57)
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: 57)

SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
RP11-707O23.5 No Adipose Subcutaneous cis GTEx