rs10746796 (DAPK1 / LINC02872): Height Variant

Key takeaways

• rs10746796 sits near LINC02872 (a long intergenic non-coding RNA, meaning a stretch of DNA that produces RNA but no protein) and DAPK1 (Death-Associated Protein Kinase 1), and is one of 12,111 common variants significantly linked to adult height.
• This locus was identified in the largest height genetics study published to date, drawing on 5.4 million participants across five major ancestry groups.
• These 12,111 height-associated variants collectively explain roughly 40-45% of height variation in European-ancestry populations, which is nearly all of the heritability attributable to common genetic variants.
• Prediction accuracy from common height variants drops to 10-24% in non-European ancestry groups, a limitation the study explicitly flags.

What the research says rs10746796 was identified as a genome-wide significant association with adult height in a GWAS (genome-wide association study, a method that scans millions of DNA positions across large populations for statistical links to a trait) of 5.4 million individuals of diverse ancestries; the study found 12,111 significant SNPs clustering within 7,209 genomic segments averaging 90 kilobases in size and covering roughly 21% of the human genome PMID 36224396. Collectively, these SNPs account for approximately 40% of height phenotypic variance in European-ancestry populations (45% when all HapMap 3 variants are included), but only 10-20% in other ancestry groups PMID 36224396. Effect sizes and associated regions are consistent across ancestry groups, with lower non-European prediction accuracy attributed to differences in linkage disequilibrium (the tendency of nearby DNA variants to be co-inherited) and allele frequencies PMID 36224396.

Reported associations

• Adult height: rs10746796 is one of 12,111 common SNPs significantly associated with adult height in a multi-ancestry GWAS of 5.4 million participants; no per-allele effect size for this specific variant was reported in the available study text PMID 36224396.

Evidence quality The single study covering this variant enrolled up to 5,380,080 participants from 281 contributing studies, spanning five major ancestry groups: European (approximately 75.8% of the total sample), East Asian (8.8%), Hispanic/admixed (8.5%), African (5.5%), and South Asian (1.4%) PMID 36224396. The 12,111 identified SNPs collectively account for nearly all common SNP-based heritability of height, representing strong statistical evidence for associations at this scale, and the study reports that this set of variants reaches predicted limits for prediction accuracy within European-ancestry populations PMID 36224396. No independent replication studies or conflicting findings for this specific variant were present in the provided literature. The study itself cautions that connecting associated regions to individual causal genes and variants requires research beyond what GWAS alone can achieve, so the functional mechanism at this locus remains to be established PMID 36224396.

Lifestyle considerations No lifestyle considerations on file for this variant.