SNP Report
Basic Info
| Name | rs2148269 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 10:24894003 - 24894003(+) | ||
| Variant Seq | G | ||
| Ancestral Allele | A | ||
| Ref Seq | A | ||
| Minor Allele Frequence | 0.206869 | ||
| Annotation | intron_variant | ||
| Variant Effect | intron_variant(ENST00000320152, ENST00000376378) | ||
| SIFT Annotation | deleterious_-_low_confidence | ||
| SIFT Variant Effect | deleterious_-_low_confidence(ENST00000376376) | ||
| PolyPhen Annotation | benign | ||
| PolyPhen Variant Effect | benign(ENST00000376376) | ||
| rSNP? | Yes Link in rVarBase | ||
| Related Regulatory Elements | n/a | ||
| Chromatin State | Weak transcription;Enhancers;Strong transcription | ||
| 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 European: P-value=4.6E-06. In meta-analysis:...... In subjects of European: P-value=4.6E-06. In meta-analysis: P-value=8.0E-07. More... | 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)  |
|---|---|---|---|
| PRTFDC1 | phosphoribosyl transferase domain containing 1 | 10p12.31 | 2(1/1/0) |
SNPs in LD with rs2148269 (count: 0)
SNP related eQTL (count: 1)