SNP Report
Basic Info
| Name | rs4838092 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 9:124005148 - 124005148(+) | ||
| Variant Seq | C | ||
| Ancestral Allele | T | ||
| Ref Seq | T | ||
| Minor Allele Frequence | 0.417332 | ||
| Annotation | downstream_gene_variant; intron_variant | ||
| Variant Effect | downstream_gene_variant(ENST00000453529); intron_variant(ENST00000560961) | ||
| SIFT Annotation | tolerated_-_low_confidence | ||
| SIFT Variant Effect | tolerated_-_low_confidence(ENST00000446480) | ||
| PolyPhen Annotation | unknown | ||
| PolyPhen Variant Effect | unknown(ENST00000446480) | ||
| rSNP? | Yes Link in rVarBase | ||
| Related Regulatory Elements | Chromatin interactive region | ||
| Chromatin State | Bivalent Enhancer;Enhancers;Flanking Bivalent TSS/Enh;Flanking Active TSS | ||
| No. of Marker's Association Results | 1 (Positive: 0; Negative: 0; Trend: 1) | ||
| Source | Literature | ||
SNP related association results
| Reference | Phenotype | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|
| Nievergelt, C. M.,2015 | PTSD | In subjects of African: P-value=9.0E-07. In subjects of African: P-value=9.0E-07. | It met the threshold for suggestive evidence of association ...... It met the threshold for suggestive evidence of association (P-value<5E-06). More... | Trend |
G*E study related association result (count: 1)
| Reference | Phenotype | Environment | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|---|
| Nievergelt, C. M.,2015 | PTSD | Childhood trauma | Gene and childhood trauma interaction: P-value<0.05 in any s...... Gene and childhood trauma interaction: P-value<0.05 in any subjects. More... | It showed a non-significant interaction effect with childhoo...... It showed a non-significant interaction effect with childhood trauma on PTSD. More... | Non-significant |
SNP related genes (count: 1)
| Approved Symbol | Approved Name | Location | No. of Association Results (Positive/Negative/Trend)  |
|---|---|---|---|
| LHX2 | LIM homeobox 2 | 9q33.3 | 1(0/0/1) |
SNPs in LD with rs4838092 (count: 0)
SNP related eQTL (count: 1)