SNP Report
Basic Info
| Name | rs2565067 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 8:27473602 - 27473602(+) | ||
| Variant Seq | G | ||
| Ancestral Allele | G | ||
| Ref Seq | A | ||
| Minor Allele Frequence | 0.199481 | ||
| Annotation | upstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant | ||
| Variant Effect | upstream_gene_variant(ENST00000522008); intron_variant(ENST00000520933, ENST00000520650, ENST00000524096, ENST00000521921, ENST00000240132, ENST00000407991, ENST00000518712, ENST00000520208, ENST00000523695); NMD_transcript_variant(ENST00000523695); non_coding_transcript_variant(ENST00000520650) | ||
| SIFT Annotation | deleterious_-_low_confidence; tolerated_-_low_confidence; tolerated | ||
| SIFT Variant Effect | deleterious_-_low_confidence(ENST00000523695, ENST00000521921, ENST00000524096); tolerated_-_low_confidence(ENST00000407991, ENST00000240132); tolerated(ENST00000518712) | ||
| PolyPhen Annotation | benign | ||
| PolyPhen Variant Effect | benign(ENST00000518712, ENST00000407991, ENST00000523695, ENST00000520208, ENST00000521921, ENST00000524096, ENST00000240132) | ||
| rSNP? | Yes Link in rVarBase | ||
| Related Regulatory Elements | Chromatin interactive region | ||
| Chromatin State | Weak transcription | ||
| 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=0.9635. In the NHW sample, main effect: P-value=0.9635. | 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 NHWB participants: P-value=0.007639. GxE interactions among NHWB participants: P-value=0.007639. | 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: 1)
| Approved Symbol | Approved Name | Location | No. of Association Results (Positive/Negative/Trend)  |
|---|---|---|---|
| CHRNA2 | cholinergic receptor, nicotinic alpha 2 | 8p21 | 1(1/0/0) |
SNPs in LD with rs2565067 (count: 0)
SNP related eQTL (count: 1)