PTSDgene database

SNP Report

Basic Info
Name rs8042149 dbSNP Ensembl
Location 15:60832754 - 60832754(+)
Variant Seq G
Ancestral Allele T
Ref Seq T
Minor Allele Frequence 0.410743
Annotation intron_variant; NMD_transcript_variant; non_coding_transcript_variant
Variant Effect intron_variant(ENST00000561093, ENST00000551975, ENST00000557822, ENST00000559145, ENST00000335670); NMD_transcript_variant(ENST00000551975); non_coding_transcript_variant(ENST00000561093, ENST00000557822, ENST00000559145)
SIFT Annotation deleterious_-_low_confidence; tolerated
SIFT Variant Effect deleterious_-_low_confidence(ENST00000551975); tolerated(ENST00000335670)
PolyPhen Annotation benign; possibly_damaging
PolyPhen Variant Effect benign(ENST00000335670); possibly_damaging(ENST00000551975)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Weak transcription
No. of Marker's Association Results 3 (Positive: 1; Negative: 2; Trend: 0)
Source Literature

SNP related association results
Normal genetic study related association results (count: 3)
Reference Phenotype Statistical Values Author Comments Marker's Category
Cao, C.,2017 PTSD symptom severity Females: B=-0.047, t=-0.709, P-value=0.479, Males: B=-0.047,...... Females: B=-0.047, t=-0.709, P-value=0.479, Males: B=-0.047, t=-0.709, P-value=0.479. More... Main effect of this SNP was not associated with PTSD severit...... Main effect of this SNP was not associated with PTSD severity. More... Non-significant
Ashley-Koch, A. E.,2015 Current PTSD In NHB P-value=0.81, in NHW P-value=0.04, meta-analysis P-va...... In NHB P-value=0.81, in NHW P-value=0.04, meta-analysis P-value=0.32. More... The only gene for which we observed any nominal evidence for...... The only gene for which we observed any nominal evidence for association in our data set was RORA. More... Non-significant
Logue, M. W.,2013 PTSD In discovery group (allele): OR=2.1, P-value=2.5E-08. Bonfe...... In discovery group (allele): OR=2.1, P-value=2.5E-08. Bonferroni-corrected: P-value<4.16E-08. Logistic regression model that included NTE (number of traumatic events) and rs8042149: SNP's main effect, P-value=4.4E-08. In the VA-African-American sample: P-value=0.87. More... It met genome-wide significance as well as Bonferroni-correc...... It met genome-wide significance as well as Bonferroni-corrected significance thresholds in discovery group. But it was not associated with PTSD in the VA-African-American sample. More... Significant
G*E study related association result (count: 9)
Reference Phenotype Environment Statistical Values Author Comments Marker's Category
Cao, C.,2017 PTSD symptom severity Earthquake exposure Females: B=0.058, t=0.818, P-value=0.414, Males: B=0.283, t=...... Females: B=0.058, t=0.818, P-value=0.414, Males: B=0.283, t=2.329, P-value=0.020. More... The interaction of rs8042149 genotype x trauma exposure was ...... The interaction of rs8042149 genotype x trauma exposure was associated with total PTSD symptoms in males. More... Significant
Cao, C.,2017 Intrusion symptom Earthquake exposure Females: B=0.114, t=1.591, P-value=0.112, Males: B=0.191, t=...... Females: B=0.114, t=1.591, P-value=0.112, Males: B=0.191, t=1.562, P-value=0.119. More... The interaction of rs8042149 genotype x trauma exposure was ...... The interaction of rs8042149 genotype x trauma exposure was not significant. More... Non-significant
Cao, C.,2017 Avoidance symptom Earthquake exposure Females: B=0.028, t=0.378, P-value=0.705, Males: B=0.173, t=...... Females: B=0.028, t=0.378, P-value=0.705, Males: B=0.173, t=1.402, P-value=0.162. More... The interaction of rs8042149 genotype x trauma exposure was ...... The interaction of rs8042149 genotype x trauma exposure was not significant. More... Non-significant
Cao, C.,2017 Negative affect symptom Earthquake exposure Females: B=0.019, t=0.261, P-value=0.794, Males: B=0.293, t=...... Females: B=0.019, t=0.261, P-value=0.794, Males: B=0.293, t=2.371, P-value=0.018. More... The interaction of rs8042149 genotype x trauma exposure was ...... The interaction of rs8042149 genotype x trauma exposure was associated with severity of the negative affect symptoms in males. More... Significant
Cao, C.,2017 Anhedonia symptom Earthquake exposure Females: B=0.043, t=0.588, P-value=0.557, Males: B=0.262, t=...... Females: B=0.043, t=0.588, P-value=0.557, Males: B=0.262, t=2.132, P-value=0.034. More... The interaction of rs8042149 genotype x trauma exposure was ...... The interaction of rs8042149 genotype x trauma exposure was associated with anhedonia symptoms in males. More... Significant
Cao, C.,2017 Externalizing behaviors symptom Earthquake exposure Females: B=0.046, t=0.612, P-value=0.540, Males: B=0.224, t=...... Females: B=0.046, t=0.612, P-value=0.540, Males: B=0.224, t=1.805, P-value=0.072. More... The interaction of rs8042149 genotype x trauma exposure was ...... The interaction of rs8042149 genotype x trauma exposure was not significant. More... Non-significant
Cao, C.,2017 Anxious arousal symptom Earthquake exposure Females: B=0.053, t=0.710, P-value=0.478, Males: B=0.186, t=...... Females: B=0.053, t=0.710, P-value=0.478, Males: B=0.186, t=1.502, P-value=0.134. More... The interaction of rs8042149 genotype x trauma exposure was ...... The interaction of rs8042149 genotype x trauma exposure was not significant. More... Non-significant
Cao, C.,2017 Dysphoria arousal symptom Earthquake exposure Females: B=-0.049, t=-0.658, P-value=0.511, Males: B=0.325, ...... Females: B=-0.049, t=-0.658, P-value=0.511, Males: B=0.325, t=2.642, P-value=0.009. More... The interaction of rs8042149 genotype x trauma exposure was ...... The interaction of rs8042149 genotype x trauma exposure was associated with dysphoric arousal symptoms in males. More... Significant
Logue, M. W.,2013 PTSD NTE (number of traumatic events) Logistic regression model that included NTE (number of traum...... Logistic regression model that included NTE (number of traumatic events) and rs8042149: SNP and NTE interaction, P-value=0.4576. More... A further logistic model indicated that NTE and SNP interact...... A further logistic model indicated that NTE and SNP interaction was not significant More... Non-significant


SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
RORA RAR related orphan receptor A 15q21-q22 6(4/2/0)

SNPs in LD with rs8042149 (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: 1)

LD-proxies (count: 0)


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