SNP Report
Basic Info
| Name | rs1316971 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 15:78638168 - 78638168(+) | ||
| Variant Seq | G,T | ||
| Ancestral Allele | A | ||
| Ref Seq | A | ||
| Minor Allele Frequence | 0.442492 | ||
| Annotation | intron_variant; NMD_transcript_variant; non_coding_transcript_variant | ||
| Variant Effect | intron_variant(ENST00000559849, ENST00000412074, ENST00000560511, ENST00000261751); NMD_transcript_variant(ENST00000559849); non_coding_transcript_variant(ENST00000560511) | ||
| SIFT Annotation | deleterious_-_low_confidence; deleterious | ||
| SIFT Variant Effect | deleterious_-_low_confidence(ENST00000559849); deleterious(ENST00000412074, ENST00000261751) | ||
| PolyPhen Annotation | unknown; possibly_damaging; probably_damaging | ||
| PolyPhen Variant Effect | unknown(ENST00000559849); possibly_damaging(ENST00000261751); probably_damaging(ENST00000412074) | ||
| rSNP? | No Link in rVarBase | ||
| Related Regulatory Elements | n/a | ||
| Chromatin State | Inactive region | ||
| 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 NHW sample, main effect: P-value=0.003377. In the NHW sample, main effect: P-value=0.003377. | 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 NHW participants: P-value=0.6343. GxE interactions among NHW participants: P-value=0.6343. | No GxE interactions were statistically significant among NHW...... No GxE interactions were statistically significant among NHW participants. More... | Non-significant |
SNP related genes (count: 2)
| Approved Symbol | Approved Name | Location | No. of Association Results (Positive/Negative/Trend)  |
|---|---|---|---|
| CHRNA4 | cholinergic receptor, nicotinic alpha 4 | 20q13.33 | 1(1/0/0) |
| CHRNB4 | cholinergic receptor, nicotinic beta 4 | 15q24 | Mapped by Literature SNP, Mapped by LD-proxy, rSNP target |
SNPs in LD with rs1316971 (count: 5)
Literature-origin SNPs (count: 0)
LD-proxies (count: 5)
SNP related eQTL (count: 1)