| Sequence Name | Change(s) |
|---|---|
| GRCh38.p7 chr 9 | NC_000009.12:g.28603942A>G |
| GRCh37.p13 chr 9 | NC_000009.11:g.28603940A>G |
| Molecule type | Change | Amino acid[Codon] | SO Term |
|---|---|---|---|
| LINGO2 transcript variant 2 | NM_001258282.1:c. | N/A | Intron Variant |
| LINGO2 transcript variant 1 | NM_152570.2:c. | N/A | Intron Variant |
| LINGO2 transcript variant X3 | XM_011517719.1:c. | N/A | Intron Variant |
| LINGO2 transcript variant X2 | XM_017014303.1:c. | N/A | Intron Variant |
| LINGO2 transcript variant X6 | XM_011517724.2:c. | N/A | Genic Upstream Transcript Variant |
| LINGO2 transcript variant X7 | XM_011517728.2:c. | N/A | Genic Upstream Transcript Variant |
| LINGO2 transcript variant X3 | XM_017014304.1:c. | N/A | Genic Upstream Transcript Variant |
| LINGO2 transcript variant X4 | XM_017014305.1:c. | N/A | Genic Upstream Transcript Variant |
| LINGO2 transcript variant X6 | XM_017014306.1:c. | N/A | Genic Upstream Transcript Variant |
| LINGO2 transcript variant X8 | XM_017014307.1:c. | N/A | Genic Upstream Transcript Variant |
| LINGO2 transcript variant X1 | XR_001746186.1:n. | N/A | Intron Variant |
| Molecule type | Change | Amino acid[Codon] | SO Term |
|---|---|---|---|
| LOC105376004 transcript variant X1 | XR_001746641.1:n....XR_001746641.1:n.5904A>G | A>G | Non Coding Transcript Variant |
| LOC105376004 transcript variant X2 | XR_929534.2:n.412...XR_929534.2:n.4128A>G | A>G | Non Coding Transcript Variant |
| Study | Population | Group | Sample # | Ref Allele | Alt Allele |
|---|---|---|---|---|---|
| 1000Genomes | African | Sub | 1322 | A=0.831 | G=0.169 |
| 1000Genomes | American | Sub | 694 | A=0.940 | G=0.060 |
| 1000Genomes | East Asian | Sub | 1008 | A=0.963 | G=0.037 |
| 1000Genomes | Europe | Sub | 1006 | A=0.941 | G=0.059 |
| 1000Genomes | Global | Study-wide | 5008 | A=0.921 | G=0.079 |
| 1000Genomes | South Asian | Sub | 978 | A=0.960 | G=0.040 |
| The Avon Longitudinal Study of Parents and Children | PARENT AND CHILD COHORT | Study-wide | 3854 | A=0.951 | G=0.049 |
| The Genome Aggregation Database | African | Sub | 8708 | A=0.864 | G=0.136 |
| The Genome Aggregation Database | American | Sub | 834 | A=0.950 | G=0.050 |
| The Genome Aggregation Database | East Asian | Sub | 1618 | A=0.972 | G=0.028 |
| The Genome Aggregation Database | Europe | Sub | 18454 | A=0.952 | G=0.047 |
| The Genome Aggregation Database | Global | Study-wide | 29916 | A=0.927 | G=0.072 |
| The Genome Aggregation Database | Other | Sub | 302 | A=0.960 | G=0.040 |
| Trans-Omics for Precision Medicine | Global | Study-wide | 29116 | A=0.907 | G=0.092 |
| UK 10K study - Twins | TWIN COHORT | Study-wide | 3708 | A=0.944 | G=0.056 |
| PMID | Title | Author | Journal |
|---|---|---|---|
| 24962325 | Genome-wide survival analysis of age at onset of alcohol dependence in extended high-risk COGA families. | Kapoor M | Drug Alcohol Depend |
| SNP ID | p-value | Traits | Study |
|---|---|---|---|
| rs10968666 | 2.29E-06 | alcohol dependence (age at onset) | 24962325 |
| Position (v37) | eGene | GeneID | Variant | p-value | TSS | Tissue | |
|---|---|---|---|---|---|---|---|
| There is no eQTL annotation for this SNP | |||||||
| 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 ) |
|---|---|---|---|---|
| chr9 | 28563357 | 28563890 | E067 | -40050 |
| chr9 | 28598488 | 28598755 | E067 | -5185 |
| chr9 | 28598834 | 28598942 | E067 | -4998 |
| chr9 | 28598968 | 28599094 | E067 | -4846 |
| chr9 | 28599100 | 28599299 | E067 | -4641 |
| chr9 | 28600047 | 28600170 | E067 | -3770 |
| chr9 | 28600210 | 28600634 | E067 | -3306 |
| chr9 | 28600696 | 28600780 | E067 | -3160 |
| chr9 | 28600795 | 28600835 | E067 | -3105 |
| chr9 | 28601092 | 28601325 | E067 | -2615 |
| chr9 | 28563357 | 28563890 | E069 | -40050 |
| chr9 | 28597102 | 28597684 | E069 | -6256 |
| chr9 | 28598303 | 28598375 | E069 | -5565 |
| chr9 | 28598488 | 28598755 | E069 | -5185 |
| chr9 | 28598834 | 28598942 | E069 | -4998 |
| chr9 | 28598968 | 28599094 | E069 | -4846 |
| chr9 | 28599100 | 28599299 | E069 | -4641 |
| chr9 | 28598303 | 28598375 | E070 | -5565 |
| chr9 | 28600047 | 28600170 | E070 | -3770 |
| chr9 | 28600210 | 28600634 | E070 | -3306 |
| chr9 | 28600696 | 28600780 | E070 | -3160 |
| chr9 | 28600795 | 28600835 | E070 | -3105 |
| chr9 | 28601092 | 28601325 | E070 | -2615 |
| chr9 | 28601442 | 28601609 | E070 | -2331 |
| chr9 | 28602216 | 28602266 | E070 | -1674 |
| chr9 | 28602587 | 28602672 | E070 | -1268 |
| chr9 | 28602736 | 28603213 | E070 | -727 |
| chr9 | 28563357 | 28563890 | E071 | -40050 |
| chr9 | 28598488 | 28598755 | E071 | -5185 |
| chr9 | 28600210 | 28600634 | E071 | -3306 |
| chr9 | 28600696 | 28600780 | E071 | -3160 |
| chr9 | 28600795 | 28600835 | E071 | -3105 |
| chr9 | 28601092 | 28601325 | E071 | -2615 |
| chr9 | 28601442 | 28601609 | E071 | -2331 |
| chr9 | 28602216 | 28602266 | E071 | -1674 |
| chr9 | 28602587 | 28602672 | E071 | -1268 |
| chr9 | 28598488 | 28598755 | E072 | -5185 |
| chr9 | 28563102 | 28563191 | E081 | -40749 |
| chr9 | 28601442 | 28601609 | E082 | -2331 |