SNP Report
Basic Info
| Name | rs893290 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 15:61190958 - 61190958(+) | ||
| Variant Seq | T | ||
| Ancestral Allele | T | ||
| Ref Seq | G | ||
| Minor Allele Frequence | 0.0395367 | ||
| Annotation | intron_variant; NMD_transcript_variant; non_coding_transcript_variant | ||
| Variant Effect | intron_variant(ENST00000560300, ENST00000335670, ENST00000557822, ENST00000551975, ENST00000560876, ENST00000558904, ENST00000559145, ENST00000561093); NMD_transcript_variant(ENST00000551975); non_coding_transcript_variant(ENST00000560300, ENST00000557822, ENST00000560876, ENST00000559145, ENST00000561093) | ||
| 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;Enhancers | ||
| No. of Marker's Association Results | 2 (Positive: 1; Negative: 1; Trend: 0) | ||
| Source | Literature | ||
SNP related association results
| Reference | Phenotype | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|
| Lowe, S. R.,2015 | High versus low posttraumatic stress trajectory | Main effects of RORA SNPs on trajectory membership (controll...... Main effects of RORA SNPs on trajectory membership (controlling for age, gender, and ancestry): OR=3.64, P-value<0.01. More... | For rs893290, having one or more copies of the minor allele ...... For rs893290, having one or more copies of the minor allele was associated with a greater likelihood of being in the high trajectory, relative to the low trajectory, a result that remained significant after correction for multiple testing. More... | Significant |
| Logue, M. W.,2013 | PTSD | In the African-Americans from the DNHS sample: OR=1.85, Nom...... In the African-Americans from the DNHS sample: OR=1.85, Nominal P-value=0.0052, Adjusted P-value=0.698. More... | Non-significant |
G*E study related association result (count: 3)
| Reference | Phenotype | Environment | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|---|
| Lowe, S. R.,2015 | Decreasing versus low posttraumatic stress trajectory | Childhood physical abuse | Interaction between rs893290 and childhood physical abuse: O...... Interaction between rs893290 and childhood physical abuse: OR=1.22, P-value<0.05. More... | The interaction between rs893290 and childhood physical abus...... The interaction between rs893290 and childhood physical abuse was significantly predictive of membership in the decreasing trajectories, relative to the low trajectory. With correction for multiple testing, the interaction remained a significant predictor of decreasing trajectories, relative to the low trajectory. More... | Significant |
| Lowe, S. R.,2015 | High versus low posttraumatic stress trajectory | Childhood physical abuse | Interaction between rs893290 and childhood physical abuse: O...... Interaction between rs893290 and childhood physical abuse: OR=1.32, P-value<0.05. More... | The interaction between rs893290 and childhood physical abus...... The interaction between rs893290 and childhood physical abuse was significantly predictive of membership in the high trajectories, relative to the low trajectory. With correction for multiple testing, the interaction remained a significant predictor of high trajectories, relative to the low trajectory. More... | Significant |
| Lowe, S. R.,2015 | Increasing versus low posttraumatic stress trajectory | Childhood physical abuse | Interaction between rs893290 and childhood physical abuse: O...... Interaction between rs893290 and childhood physical abuse: OR=1.46, P-value<0.05. More... | The interaction between rs893290 and childhood physical abus...... The interaction between rs893290 and childhood physical abuse was significantly predictive of membership in the increasing trajectories, relative to the low trajectory. More... | 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 rs893290 (count: 5)
Literature-origin SNPs (count: 0)
LD-proxies (count: 5)
SNP related eQTL (count: 1)