SNP Report
Basic Info
| Name | rs2862383 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 11:41802575 - 41802575(+) | ||
| Variant Seq | G | ||
| Ancestral Allele | T | ||
| Ref Seq | T | ||
| Minor Allele Frequence | 0.438698 | ||
| Annotation | downstream_gene_variant; intron_variant; non_coding_transcript_variant | ||
| Variant Effect | downstream_gene_variant(ENST00000531247); intron_variant(ENST00000529282, ENST00000528720); non_coding_transcript_variant(ENST00000529282, ENST00000528720) | ||
| SIFT Annotation | tolerated | ||
| SIFT Variant Effect | tolerated(ENST00000527150, ENST00000278198, ENST00000530763, ENST00000619527, ENST00000528697) | ||
| PolyPhen Annotation | benign | ||
| PolyPhen Variant Effect | benign(ENST00000527150, ENST00000278198, ENST00000530763, ENST00000619527, ENST00000528697) | ||
| rSNP? | Yes Link in rVarBase | ||
| Related Regulatory Elements | n/a | ||
| Chromatin State | Weak transcription | ||
| No. of Marker's Association Results | 1 (Positive: 0; Negative: 0; Trend: 1) | ||
| Source | Literature | ||
SNP related association results
| Reference | Phenotype | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|
| Ashley-Koch, A. E.,2015 | Current PTSD | In NHB subset: OR=1.64, main effect P-value=6.17E-06. In NHB subset: OR=1.64, main effect P-value=6.17E-06. |
This SNP was nominally significant with current PTSD among t......
This SNP was nominally significant with current PTSD among the NHB subset (P-value |
Trend |
G*E study related association result (count: 2)
| Reference | Phenotype | Environment | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|---|
| Ashley-Koch, A. E.,2015 | Current PTSD | Childhood trauma | Logistic regression (additive genetic model) in NHB subset: ...... Logistic regression (additive genetic model) in NHB subset: snp and child trauma interaction P-value=0.15. More... | We haven't observed significant evidence for gene*environmen...... We haven't observed significant evidence for gene*environment interactions of this snp with childhood trauma. More... | Non-significant |
| Ashley-Koch, A. E.,2015 | Current PTSD | NTE (number of traumatic events) | Logistic regression (additive genetic model) in NHB subset: ...... Logistic regression (additive genetic model) in NHB subset: snp and total trauma interaction P-value=0.50. More... | We haven't observed significant evidence for gene*environmen...... We haven't observed significant evidence for gene*environment interactions of this snp with total trauma. More... | Non-significant |
SNP related genes (count: 1)
| Approved Symbol | Approved Name | Location | No. of Association Results (Positive/Negative/Trend)  |
|---|---|---|---|
| LINC01499 | long intergenic non-protein coding RNA 1499 | 11p12 | Mapped by Literature SNP, Mapped by LD-proxy |
SNPs in LD with rs2862383 (count: 134)
Literature-origin SNPs (count: 1)
LD-proxies (count: 133)
SNP related eQTL (count: 1)