To examine the function of murine -globin locus control region (LCR) 5 hypersensitive site 3 (HS3) in its native chromosomal context, we deleted this site from the mouse germ line by using homologous recombination techniques. Previous experiments with human 5 HS3 in transgenic models suggested that this site independently contains at least 50% of total LCR activity and that it interacts preferentially with the human ␥-globin genes in embryonic erythroid cells. However, in this study, we demonstrate that deletion of murine 5 HS3 reduces expression of the linked embryonic y-and H 1-globin genes only minimally in yolk sac-derived erythroid cells and reduces output of the linked adult  (major plus minor) globin genes by approximately 30% in adult erythrocytes. When the selectable marker PGK-neo cassette was left within the HS3 region of the LCR, a much more severe phenotype was observed at all developmental stages, suggesting that PGK-neo interferes with LCR activity when it is retained within the LCR. Collectively, these results suggest that murine 5 HS3 is not required for globin gene switching; importantly, however, it is required for approximately 30% of the total LCR activity associated with adult -globin gene expression in adult erythrocytes.The human -globin gene cluster consists of a set of five functional genes and one pseudogene. The cluster is active exclusively in erythroid cells, and the individual -like globin genes are expressed during specific developmental stages (33). Sequences local to the individual globin genes are sufficient to direct developmental stage-specific and tissue-specific expression (3,4,6,24,37,38), but high-level expression of the globin genes depends on distant regulatory sequences collectively called the locus control region (LCR) (33). The LCR is composed of a series of erythroid cell-specific, developmentally stable DNase I-hypersensitive sites (HSs) (5, 12, 39) that contain the sequences essential for LCR activity (7,11,13,16,24,29,36).Recent efforts have been directed toward determining the essential sequences within the LCR. Homology comparisons between the LCRs of humans, mice, goats, and rabbits have revealed conservation of the HS cores but not the intervening sequences (17-19, 22, 23, 25, 31). This finding suggests that the conserved sequences define the HS; functional assays have confirmed this hypothesis (12-14, 17, 18, 29, 30, 36). The HSs have been tested individually in transient and stable assays in tissue culture cells and in transgenic mice; 5Ј HS2, -3, and -4 do indeed contain the information that directs high-level expression of linked genes.Recent studies have focused on the activities of the individual HSs within the context of the entire -globin cluster. These approaches have been undertaken to avoid the complications of studying small transgenes in which distant or undefined regulatory influences may be missing. Transgenic animals have now been made by using large DNA fragments derived from the -globin cluster (1,8,15,27,28,35); although these tra...