PTSDgene database

SNP Report

Basic Info
Name rs1006737 dbSNP Ensembl
Location 12:2236129 - 2236129(+)
Variant Seq A
Ancestral Allele G
Ref Seq G
Minor Allele Frequence 0.301518
Annotation intron_variant
Variant Effect intron_variant(ENST00000399617, LRG_334t4, ENST00000399606, ENST00000399597, ENST00000327702, LRG_334t3, ENST00000402845, ENST00000399637, ENST00000399603, ENST00000399649, ENST00000344100, ENST00000335762, ENST00000399638, ENST00000347598, ENST00000399641, ENST00000399621, ENST00000480911, LRG_334t1, ENST00000399629, ENST00000399634, ENST00000399644, LRG_334t2, ENST00000406454, ENST00000399595, ENST00000399655, ENST00000399601, ENST00000399591)
SIFT Annotation deleterious; tolerated
SIFT Variant Effect deleterious(ENST00000399641, ENST00000344100, ENST00000399603, ENST00000399644, ENST00000399655, ENST00000399621, ENST00000399595, ENST00000402845, ENST00000399649, ENST00000399638, ENST00000399591, ENST00000399634, LRG_334t3, ENST00000399629, LRG_334t2, ENST00000399637, ENST00000335762, ENST00000347598, ENST00000399606, ENST00000399617, ENST00000399597, LRG_334t4, LRG_334t1, ENST00000327702, ENST00000406454, ENST00000399601); tolerated(ENST00000480911)
PolyPhen Annotation benign; possibly_damaging; probably_damaging
PolyPhen Variant Effect benign(ENST00000399641, ENST00000399603, ENST00000399595, ENST00000399649, ENST00000399591, ENST00000399629, ENST00000399617, ENST00000399597, LRG_334t4, ENST00000327702, ENST00000406454, ENST00000399601); possibly_damaging(ENST00000480911, ENST00000399644, ENST00000402845, ENST00000399638, LRG_334t3, LRG_334t2, ENST00000335762, ENST00000347598, ENST00000399606); probably_damaging(ENST00000344100, ENST00000399655, ENST00000399621, ENST00000399634, ENST00000399637, LRG_334t1)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Weak transcription;Enhancers
No. of Marker's Association Results 2 (Positive: 0; Negative: 2; Trend: 0)
Source Literature

SNP related association results
Normal genetic study related association results (count: 2)
Reference Phenotype Statistical Values Author Comments Marker's Category
Dunn, E. C.,2014 Post Traumatic Growth (PTG) T4: joint test P-value> 0.05, variant P-value> 0.05. T4: joint test P-value> 0.05, variant P-value> 0.05. We did not find any significant associations between the gen...... We did not find any significant associations between the genetic variants and PTG (P-values > 0.05). More... Non-significant
Dunn, E. C.,2014 Post-traumatic stress symptoms (PTS) T4: joint test P-value> 0.05, variant P-value> 0.05. T4: joint test P-value> 0.05, variant P-value> 0.05. We did not find any significant associations between the gen...... We did not find any significant associations between the genetic variants and PTS (P-values > 0.05). More... Non-significant
G*E study related association result (count: 2)
Reference Phenotype Environment Statistical Values Author Comments Marker's Category
Dunn, E. C.,2014 Post Traumatic Growth (PTG) Hurricane exposure T4: joint test P-value> 0.05, GxE interaction P-value> 0.05. T4: joint test P-value> 0.05, GxE interaction P-value> 0.05. We did not find any significant associations between the gen...... We did not find any significant associations between the genetic variants and PTG (P-values > 0.05). More... Non-significant
Dunn, E. C.,2014 Post-traumatic stress symptoms (PTS) Hurricane exposure Genetic variants and T3 or T4 PTS interaction: all P-values ...... Genetic variants and T3 or T4 PTS interaction: all P-values > 0.05. More... We did not find any significant associations between the gen...... We did not find any significant associations between the genetic variants and T3 or T4 PTS (all P-values > 0.05). More... Non-significant


SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
CACNA1C calcium channel, voltage-dependent, L type, alpha 1C subunit 12p13.3 2(0/2/0)

SNPs in LD with rs1006737 (count: 4)
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: 4)


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