SNP Report
Basic Info
| Name | rs139604943 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 10:60652713 - 60652713(+) | ||
| Variant Seq | T | ||
| Ancestral Allele | A | ||
| Ref Seq | A | ||
| Minor Allele Frequence | 0.0125799 | ||
| Annotation | intron_variant; non_coding_transcript_variant | ||
| Variant Effect | intron_variant(ENST00000373827, ENST00000510382); non_coding_transcript_variant(ENST00000510382) | ||
| SIFT Annotation | tolerated_-_low_confidence | ||
| SIFT Variant Effect | tolerated_-_low_confidence(ENST00000373827) | ||
| PolyPhen Annotation | benign | ||
| PolyPhen Variant Effect | benign(ENST00000373827) | ||
| rSNP? | Yes Link in rVarBase | ||
| Related Regulatory Elements | Chromatin interactive region | ||
| Chromatin State | Weak transcription;Enhancers | ||
| No. of Marker's Association Results | 1 (Positive: 1; Negative: 0; Trend: 0) | ||
| Source | Literature | ||
SNP related association results
| Reference | Phenotype | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|
| Nievergelt, C. M.,2015 | PTSD | In 2179 MRS subjects of European descent: P-value=0.008. In 2179 MRS subjects of European descent: P-value=0.008. | P-value is nominally significant (P-value<0.05). P-value is nominally significant (P-value<0.05). | Significant |
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 | In 2179 MRS subjects of European descent, gene and childhood...... In 2179 MRS subjects of European descent, gene and childhood trauma interaction: P-value<0.05. 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: 2)
| Approved Symbol | Approved Name | Location | No. of Association Results (Positive/Negative/Trend)  |
|---|---|---|---|
| CDK1 | cyclin-dependent kinase 1 | 10q21.2 | rSNP target |
| ANK3 | ankyrin 3, node of Ranvier (ankyrin G) | 10q21 | 2(2/0/0) |
SNPs in LD with rs139604943 (count: 0)
SNP related eQTL (count: 1)