SNP Report
Basic Info
| Name | rs80087508 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 15:78589891 - 78589891(+) | ||
| Variant Seq | G | ||
| Ancestral Allele | A | ||
| Ref Seq | A | ||
| Minor Allele Frequence | 0.00419329 | ||
| Annotation | downstream_gene_variant; non_coding_transcript_exon_variant; missense_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant | ||
| Variant Effect | downstream_gene_variant(ENST00000348639, ENST00000559658, ENST00000559002); non_coding_transcript_exon_variant(ENST00000567141); missense_variant(ENST00000394802, ENST00000299565); upstream_gene_variant(ENST00000559576); intron_variant(ENST00000559554); non_coding_transcript_variant(ENST00000567141) | ||
| SIFT Annotation | deleterious | ||
| SIFT Variant Effect | deleterious(ENST00000394802, ENST00000299565) | ||
| PolyPhen Annotation | probably_damaging | ||
| PolyPhen Variant Effect | probably_damaging(ENST00000394802, ENST00000299565) | ||
| rSNP? | Yes Link in rVarBase | ||
| Related Regulatory Elements | n/a | ||
| Chromatin State | Weak transcription;Strong transcription | ||
| 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 |
|---|---|---|---|---|
| Kimbrel, N. A.,2015 | PTSD | In the NHB sample, main effect: P-value=0.01196. In the NHB sample, main effect: P-value=0.01196. | 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 |
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 NHB participants: P-value=0.9147. GxE interactions among NHB participants: P-value=0.9147. | No GxE interactions were statistically significant among NHB...... No GxE interactions were statistically significant among NHB participants. More... | Non-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) |
| CHRNA5 | cholinergic receptor, nicotinic alpha 5 | 15q24 | 2(1/1/0) |
SNPs in LD with rs80087508 (count: 0)
SNP related eQTL (count: 1)