Genetic studies of the white locus have shown that it has a distal region where structural mutations occur and a proximal region where regulatory mutations occur. To better understand the molecular basis of this genetic organization we have analyzed white locus transcription. A 2.7-kilobase transcript comprising 0.0005% of poly(A)-RNA was detected in RNA prepared from pupae or adults. The structure of this transcript helps clarify some unusual genetic properties of the locus. There is a small 5' exon separated from the majority of the sequences found in the mature RNA by an intron of "2.8 kilobases. This 5' exon is from the proximal region of the locus, whereas the main body of the RNA maps to the distal region. The mutationally silent region between the proximal and distal regions corresponds to the large intron. We have identified the family and determined the exact location of a number of transposable element insertions within the locus. These results show that transposable element insertions within introns can be without phenotypic effect. We have also investigated the effect on the white transcript of the zeste mutation, which represses white locus expression as judged by eye color phenotype. The RNA was unchanged in size or abundance in poly(A)-RNA from adult flies. This demonstrates that the zeste-white interaction does not occur by simply repressing transcription of the white locus in all tissues.The white locus of Drosophila melanogaster has long been the subject of intensive genetic studies (for a review see ref. 1). Mutations in white affect the degree of pigmentation of the adult eye, ocelli, and testis sheath and of the larval Malpighian tubules (2). The brick-red eye color of wild-type flies is due to the accumulation of both ommochrome (brown) and pteridine (red and yellow) pigments. Some white mutations, including deletions for the entire locus, result in the lack of all pigmentation, whereas other mutations reduce the amounts of one or both classes of pigment.A number of different sites where mutations occur within the white locus have been separated by recombination and ordered on a genetic map of the locus (3, 4). These sites have been divided into distal and proximal regions with respect to the centromere, where the distal region is defined as including the site of the white-apricot (wa) mutation and those mutations mapping distal to it (3). The DNA sequences for the wild-type locus (5, 6) and a number of mutants associated with insertions (6-11) have been isolated and characterized. The physical map constructed from these studies correlates well with the genetic map and shows in addition that the genetically defined distal and proximal regions are physically separated by some 3 kilobases (kb) in which no mutations map.Genetic studies have led to the suggestion that the distal region contains structural sequences, whereas the proximal domain contains regulatory sequences (11-14). Most null mutations (3, 15, 16) and apparent point mutations (11) map to the distal region. A series of m...