rs6689

This is a coding sequence variant variant in the HLA-DQB1 gene.

GWAS Catalog Trait Associations (22)

Genome-wide significant associations (p < 5×10⁻⁸) from the NHGRI-EBI GWAS Catalog.

total cholesterol measurement

Allele G
OR 0.04
p 2.0e-87
N 1,320,016
Large GWAS
European
Verma A et al. Diversity and scale: Genetic architecture of 2068 traits in the VA Million Veteran Program. Science (new York, N.y.) 385(6706):eadj1182 (2024)
Allele G
OR 0.04
p 2.0e-30
N 397,478
Major Consortium StudyLarge GWAS
European
Sakaue S et al. A cross-population atlas of genetic associations for 220 human phenotypes. Nature Genetics 53(10):1415-1424 (2021)
Allele G
OR 0.03
p 2.0e-10
N 135,808
Large GWAS
East Asian

non-high density lipoprotein cholesterol measurement

Allele G
OR 0.05
p 1.0e-72
N 1,320,016
Large GWAS
European

low density lipoprotein cholesterol measurement

Allele G
OR 0.04
p 1.0e-70
N 1,320,016
Large GWAS
European

phospholipids:total lipids ratio

Zoodsma M et al. A genetic map of human metabolism across the allele frequency spectrum. Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.04
p 1.0e-47
N 450,015
Large GWAS
multi-ancestry

cholesterol in very small VLDL measurement

Zoodsma M et al. A genetic map of human metabolism across the allele frequency spectrum. Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.03
p 7.0e-39
N 450,015
Large GWAS
multi-ancestry

cholesteryl ester measurement

Zoodsma M et al. A genetic map of human metabolism across the allele frequency spectrum. Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.03
p 3.0e-34
N 450,015
Large GWAS
multi-ancestry

triglycerides in very small VLDL measurement

Karjalainen MK et al. Genome-wide characterization of circulating metabolic biomarkers. Nature 628(8006):130-138 (2024)
Allele A
OR 0.05
p 1.0e-24
N 136,016
Large GWAS
multi-ancestry

total lipids in small VLDL

Karjalainen MK et al. Genome-wide characterization of circulating metabolic biomarkers. Nature 628(8006):130-138 (2024)
Allele A
OR 0.05
p 8.0e-24
N 136,016
Large GWAS
multi-ancestry

blood VLDL cholesterol amount

Karjalainen MK et al. Genome-wide characterization of circulating metabolic biomarkers. Nature 628(8006):130-138 (2024)
Allele A
OR 0.05
p 1.0e-23
N 136,016
Large GWAS
multi-ancestry

total cholesterol in small VLDL

Karjalainen MK et al. Genome-wide characterization of circulating metabolic biomarkers. Nature 628(8006):130-138 (2024)
Allele A
OR 0.05
p 3.0e-22
N 136,016
Large GWAS
multi-ancestry

About HLA-DQB1

HLA-DQB1 belongs to the HLA class II beta chain paralogs. This class II molecule is a heterodimer consisting of an alpha (DQA) and a beta chain (DQB), both anchored in the membrane. It plays a central role in the immune system by presenting peptides derived from extracellular proteins. Class II molecules are expressed in antigen presenting cells (APC: B lymphocytes, dendritic cells, macrophages). The beta chain is approximately 26-28 kDa and it contains six exons. Exon 1 encodes the leader peptide, exons 2 and 3 encode the two extracellular domains, exon 4 encodes the transmembrane domain and exon 5 encodes the cytoplasmic tail. Within the DQ molecule both the alpha chain and the beta chain contain the polymorphisms specifying the peptide binding specificities, resulting in up to four different molecules. Typing for these polymorphisms is routinely done for bone marrow transplantation. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2011]

View all HLA-DQB1 variants →

Gene information from NCBI Gene. Variant classifications from ClinVar.

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