Sequence Name | Change(s) |
---|---|
GRCh38.p7 chr 9 | NC_000009.12:g.77397484G>A |
GRCh37.p13 chr 9 | NC_000009.11:g.80012400G>A |
VPS13A RefSeqGene | NG_008931.1:g.225040G>A |
Molecule type | Change | Amino acid[Codon] | SO Term |
---|---|---|---|
VPS13A transcript variant C | NM_001018037.1:c. | N/A | Intron Variant |
VPS13A transcript variant A | NM_033305.2:c. | N/A | Intron Variant |
VPS13A transcript variant D | NM_001018038.2:c. | N/A | Genic Downstream Transcript Variant |
VPS13A transcript variant B | NM_015186.3:c. | N/A | Genic Downstream Transcript Variant |
VPS13A transcript variant X1 | XR_001746259.1:n. | N/A | Intron Variant |
VPS13A transcript variant X2 | XR_001746260.1:n. | N/A | Intron Variant |
Study | Population | Group | Sample # | Ref Allele | Alt Allele |
---|---|---|---|---|---|
1000Genomes | African | Sub | 1322 | G=0.977 | A=0.023 |
1000Genomes | American | Sub | 694 | G=0.710 | A=0.290 |
1000Genomes | East Asian | Sub | 1008 | G=0.689 | A=0.311 |
1000Genomes | Europe | Sub | 1006 | G=0.804 | A=0.196 |
1000Genomes | Global | Study-wide | 5008 | G=0.793 | A=0.207 |
1000Genomes | South Asian | Sub | 978 | G=0.700 | A=0.300 |
The Avon Longitudinal Study of Parents and Children | PARENT AND CHILD COHORT | Study-wide | 3854 | G=0.799 | A=0.201 |
The Genome Aggregation Database | African | Sub | 8716 | G=0.954 | A=0.046 |
The Genome Aggregation Database | American | Sub | 834 | G=0.670 | A=0.330 |
The Genome Aggregation Database | East Asian | Sub | 1612 | G=0.663 | A=0.337 |
The Genome Aggregation Database | Europe | Sub | 18438 | G=0.804 | A=0.195 |
The Genome Aggregation Database | Global | Study-wide | 29902 | G=0.836 | A=0.163 |
The Genome Aggregation Database | Other | Sub | 302 | G=0.790 | A=0.210 |
Trans-Omics for Precision Medicine | Global | Study-wide | 29118 | G=0.849 | A=0.150 |
UK 10K study - Twins | TWIN COHORT | Study-wide | 3708 | G=0.801 | A=0.199 |
PMID | Title | Author | Journal |
---|---|---|---|
17158188 | Novel genes identified in a high-density genome wide association study for nicotine dependence. | Bierut LJ | Hum Mol Genet |
SNP ID | p-value | Traits | Study |
---|---|---|---|
rs11145410 | 0.000786 | nicotine dependence | 17158188 |
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 | 80054662 | 80055632 | E067 | 42262 |
chr9 | 80042261 | 80042341 | E069 | 29861 |
chr9 | 80042347 | 80042567 | E069 | 29947 |
chr9 | 80042583 | 80042663 | E069 | 30183 |
chr9 | 80054662 | 80055632 | E069 | 42262 |
chr9 | 80050326 | 80050456 | E070 | 37926 |
chr9 | 80050641 | 80050948 | E070 | 38241 |
chr9 | 80050963 | 80051121 | E070 | 38563 |
chr9 | 80051339 | 80051389 | E070 | 38939 |
chr9 | 80051425 | 80051485 | E070 | 39025 |
chr9 | 80051495 | 80051577 | E070 | 39095 |
chr9 | 80054467 | 80054540 | E071 | 42067 |
chr9 | 80054662 | 80055632 | E072 | 42262 |
chr9 | 80042583 | 80042663 | E073 | 30183 |
chr9 | 80042773 | 80042823 | E073 | 30373 |
chr9 | 80047107 | 80047157 | E073 | 34707 |
chr9 | 80049509 | 80049568 | E073 | 37109 |
chr9 | 80049743 | 80049839 | E073 | 37343 |
chr9 | 80049509 | 80049568 | E081 | 37109 |
chr9 | 80054662 | 80055632 | E081 | 42262 |
Chromosome | Start | End | Region | Distance(-/+:Up/Downstream) |
---|---|---|---|---|
chr9 | 80022929 | 80023011 | E074 | 10529 |
chr9 | 80023220 | 80023274 | E074 | 10820 |