| Sequence Name | Change(s) |
|---|---|
| GRCh38.p7 chr X | NC_000023.11:g.154496001A>G |
| GRCh37.p13 chr X fix patch HG1497_PATCH | NW_003871103.3:g.1929980A>G |
| RN7SL697P pseudogene | NG_044023.1:g.213T>C |
| GRCh37.p13 chr X | NC_000023.10:g.153724351G>A |
| Study | Population | Group | Sample # | Ref Allele | Alt Allele |
|---|---|---|---|---|---|
| 1000Genomes | African | Sub | 1003 | G=0.100 | A==0.900 |
| 1000Genomes | American | Sub | 524 | G=0.860 | A==0.140 |
| 1000Genomes | East Asian | Sub | 764 | G=0.820 | A==0.180 |
| 1000Genomes | Europe | Sub | 766 | G=0.890 | A==0.110 |
| 1000Genomes | Global | Study-wide | 3775 | G=0.603 | A==0.397 |
| 1000Genomes | South Asian | Sub | 718 | G=0.580 | A==0.420 |
| The Avon Longitudinal Study of Parents and Children | PARENT AND CHILD COHORT | Study-wide | 2889 | G=0.881 | A==0.119 |
| The Genome Aggregation Database | African | Sub | 5557 | G=0.186 | A==0.814 |
| The Genome Aggregation Database | American | Sub | 606 | G=0.890 | A==0.110 |
| The Genome Aggregation Database | East Asian | Sub | 1000 | G=0.830 | A==0.170 |
| The Genome Aggregation Database | Europe | Sub | 12491 | G=0.885 | A==0.114 |
| The Genome Aggregation Database | Global | Study-wide | 19830 | G=0.685 | A==0.314 |
| The Genome Aggregation Database | Other | Sub | 176 | G=0.730 | A==0.270 |
| UK 10K study - Twins | TWIN COHORT | Study-wide | 3708 | G=0.886 | A==0.114 |
| PMID | Title | Author | Journal |
|---|---|---|---|
| 19581569 | Genome-wide association study of alcohol dependence. | Treutlein J | Arch Gen Psychiatry |
| SNP ID | p-value | Traits | Study |
|---|---|---|---|
| rs12392447 | 2.88E-08 | alcohol dependence | 19581569 |
| Position (v37) | eGene | GeneID | Variant | p-value | TSS | Tissue |
|---|---|---|---|---|---|---|
| ChrX:153724351 | FAM3A | ENSG00000071889.12 | G>A | 3.3715e-8 | -20215 | Cerebellum |
| ChrX:153724351 | PLXNA3 | ENSG00000130827.5 | G>A | 2.2025e-15 | 37730 | Frontal_Cortex_BA9 |
| ChrX:153724351 | PLXNA3 | ENSG00000130827.5 | G>A | 2.1868e-11 | 37730 | Cortex |
| ChrX:153724351 | PLXNA3 | ENSG00000130827.5 | G>A | 1.0267e-6 | 37730 | Brain_Spinal_cord_cervical |
| ChrX:153724351 | PLXNA3 | ENSG00000130827.5 | G>A | 8.9151e-5 | 37730 | Hippocampus |
| ChrX:153724351 | PLXNA3 | ENSG00000130827.5 | G>A | 2.6239e-11 | 37730 | Putamen_basal_ganglia |
| ChrX:153724351 | PLXNA3 | ENSG00000130827.5 | G>A | 5.5275e-3 | 37730 | Amygdala |
| Probe ID | Position | Gene | beta | p-value | |||
|---|---|---|---|---|---|---|---|
| There is no meQTL annotation for this SNP | |||||||
There is no significant Hi-C chromatin interaction data for this SNP.
| Chromosome | Start | End | Region | Distance ( -/+ : Up/Downstream ) |
|---|---|---|---|---|
| chrX | 1886033 | 1886244 | E070 | -43736 |
| chrX | 1886274 | 1886355 | E070 | -43625 |
| chrX | 1932680 | 1932815 | E070 | 2700 |
| chrX | 1932886 | 1933029 | E070 | 2906 |
| chrX | 1933083 | 1933123 | E070 | 3103 |
| chrX | 1979717 | 1979957 | E072 | 49737 |
| chrX | 1886033 | 1886244 | E081 | -43736 |
| chrX | 1886274 | 1886355 | E081 | -43625 |
| chrX | 1952599 | 1952950 | E081 | 22619 |
| chrX | 1953081 | 1953187 | E081 | 23101 |