Structural characterization of a new variant of the CYP2A6 gene (CYP2A6*1B) apparently diagnosed as heterozygotes of CYP2A6*1A and CYP2A6*4C

Pharmacogenetics. 2000 Nov;10(8):687-93. doi: 10.1097/00008571-200011000-00003.


During the course of investigating the frequency of a CYP2A6 whole deletion-type polymorphism (CYP2A6*4C) in Japanese, an unexpectedly large population of heterozygotes for CYP2A6*4C and the wild-type (CYP2A6*1A) was found. Cloning of a cDNA encoding CYP2A6 from the liver of individuals judged as heterozygotes for CYP2A6*4C and the CYP2A6*1A was carried out to identify the causal allele(s) responsible for a possible overestimation. A clone isolated from the liver cDNA library possessed 58 bp sequences in the 3'-untranslated region, which was replaced with the corresponding region of the CYP2A7 gene. The same gene conversion existed in the genomic DNA, indicating that the replacement was not a cloning artifact. Based on the gene structure of the allele (CYP2A6*1B), this variant was thought to be one of the causal alleles responsible for overestimation of heterozygotes for CYP2A6*4C and CYP2A6* A. To investigate this further, we developed a genotyping method which could distinguish the CYP2A6*A, CYP2A6*1B and CYP2A6*4C alleles from each other. The results clearly showed that CYP2A6*1B was the sole allele responsible for the overestimation. We conclude that the new genotyping method allows determination of six genotypes of the CYP2A6 gene, simultaneously and precisely, in both Oriental and Caucasian populations.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • 3' Untranslated Regions
  • Alleles
  • Artifacts
  • Aryl Hydrocarbon Hydroxylases*
  • Asian People / genetics
  • Base Sequence
  • Cytochrome P-450 CYP2A6
  • Cytochrome P-450 Enzyme System / genetics*
  • Cytochrome P450 Family 2
  • France
  • Gene Frequency
  • Genetic Variation*
  • Genotype
  • Heterozygote
  • Humans
  • Japan
  • Mixed Function Oxygenases / genetics*
  • Molecular Sequence Data
  • Sequence Homology, Nucleic Acid
  • White People / genetics


  • 3' Untranslated Regions
  • Cytochrome P-450 Enzyme System
  • Mixed Function Oxygenases
  • Aryl Hydrocarbon Hydroxylases
  • CYP2A6 protein, human
  • CYP2A7 protein, human
  • Cytochrome P-450 CYP2A6
  • Cytochrome P450 Family 2