SNP Report
Basic Info
| Name | rs62516743 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 8:42704751 - 42704751(+) | ||
| Variant Seq | A | ||
| Ancestral Allele | G | ||
| Ref Seq | G | ||
| Minor Allele Frequence | 0.0229633 | ||
| Annotation | downstream_gene_variant; intron_variant; non_coding_transcript_variant | ||
| Variant Effect | downstream_gene_variant(ENST00000527318); intron_variant(ENST00000289957, ENST00000534391, ENST00000531610); non_coding_transcript_variant(ENST00000531610) | ||
| SIFT Annotation | tolerated | ||
| SIFT Variant Effect | tolerated(ENST00000289957) | ||
| PolyPhen Annotation | benign | ||
| PolyPhen Variant Effect | benign(ENST00000289957) | ||
| rSNP? | Yes Link in rVarBase | ||
| Related Regulatory Elements | n/a | ||
| Chromatin State | Weak transcription;Enhancers;Flanking Active TSS | ||
| No. of Marker's Association Results | 1 (Positive: 0; Negative: 1; Trend: 0) | ||
| Source | Literature | ||
SNP related association results
| Reference | Phenotype | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|
| Kimbrel, N. A.,2015 | PTSD | In the NHW sample, main effect: P-value=0.7071. In the NHW sample, main effect: P-value=0.7071. | No main effect was statistically significant among NHW parti...... No main effect was statistically significant among NHW participants. More... | Non-significant |
G*E study related association result (count: 1)
| Reference | Phenotype | Environment | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|---|
| Kimbrel, N. A.,2015 | PTSD | Smoking status | GxE interactions among NHW participants: P-value=0.03093. GxE interactions among NHW participants: P-value=0.03093. | Nominally significant associations (p<.05) were observed, bu...... Nominally significant associations (p<.05) were observed, but it didn't met multiple-testing threshold. More... | Significant |
SNP related genes (count: 2)
| Approved Symbol | Approved Name | Location | No. of Association Results (Positive/Negative/Trend)  |
|---|---|---|---|
| CHRNA3 | cholinergic receptor, nicotinic alpha 3 | 15q24 | 1(0/1/0) |
| CHRNB3 | cholinergic receptor, nicotinic beta 3 | 8p11.21 | Mapped by Literature SNP, Mapped by LD-proxy |
SNPs in LD with rs62516743 (count: 136)
Literature-origin SNPs (count: 0)
LD-proxies (count: 136)
SNP related eQTL (count: 1)