rs464049
A SNP in the SLC6A3 gene on chromosome 5. Its most notable genotype is G;G: decreased risk of schizophrenia in limited study
- Gene
- SLC6A3
- Location
- Chr 51,423,790 (GRCh38)
- Highest magnitude
- 1.5Minor
- Tested on
- 23andMe, AncestryDNA, FamilyTreeDNA
- Minor allele frequency
- 42%
Genotypes
Plus strand, as in 23andMe and AncestryDNA files.
- G;GMost notableGooddecreased risk of schizophrenia in limited study
- A;GBadincreased risk of schizophrenia in limited study
- A;ABadincreased risk of schizophrenia in limited study
SNPedia records rs464049 on the minus strand: (C;C), (C;T), (T;T). Magnitude rates how notable a genotype is from 0 to 10, not how risky it is.
Frequency
Share of each genotype in 11 HapMap populations.
- AverageG;G 38% A;G 46% A;A 16%
- European ancestry (Utah)G;G 21% A;G 50% A;A 28%
- Han Chinese (Beijing)G;G 43% A;G 46% A;A 11%
- Japanese (Tokyo)G;G 42% A;G 49% A;A 9%
- Yoruba (Nigeria)G;G 46% A;G 42% A;A 12%
- African ancestry (Southwest US)G;G 45% A;G 45% A;A 11%
- Chinese (Denver)G;G 46% A;G 41% A;A 13%
- Gujarati IndianG;G 51% A;G 38% A;A 12%
- Luhya (Kenya)G;G 55% A;G 41% A;A 5%
- Mexican ancestry (Los Angeles)G;G 32% A;G 46% A;A 23%
- Maasai (Kenya)G;G 24% A;G 53% A;A 24%
- TuscanG;G 20% A;G 55% A;A 25%
Related
Conditions, medicines and genes
Other SLC6A3 SNPs
- rs267607068T;TInfantile Parkinsonism-dystoniaVery important
- rs267607069A;AInfantile Parkinsonism-dystoniaVery important
- rs431905504T;TInfantile Parkinsonism-dystoniaVery important
- rs431905514T;TInfantile Parkinsonism-dystoniaVery important
- rs431905515G;GInfantile Parkinsonism-dystoniaVery important
- rs431905516A;AInfantile Parkinsonism-dystoniaVery important
- rs27072C;C2x risk of severe alcohol withdrawal. Possible increased odds of ADHD.Worth knowing
- rs460000G;GBetter response to amphetamineWorth knowing
Notes
From SNPedia
Show notes, about 120 words
Associated with schizophrenia in a study of Croatians. Due to the limited number and diversity of the studied population, more study is needed to confirm any link. The T allele was associated with an increased risk of schizophrenia. A network of dopaminergic gene variations implicated as risk factors for schizophrenia. Family based association study of pediatric bipolar disorder and the dopamine transporter gene (SLC6A3). Genome-wide and candidate gene association study of cigarette smoking behaviors. Financial and psychological risk attitudes associated with two single nucleotide polymorphisms in the nicotine receptor (CHRNA4) gene. Two loci control tuberculin skin test reactivity in an area hyperendemic for tuberculosis.
Source and license
Adapted from rs464049 on SNPedia, using a snapshot taken October 16, 2026. SNPedia content is shared under CC BY-NC-SA 3.0 US, and this page is shared under the same license.
SNPedia is a community-edited wiki. Its entries can be incomplete, out of date or wrong, and nothing here is a diagnosis or medical advice. Magnitude is a community rating of how interesting a genotype is, not a risk score.