Locus control regions (LCRs) are responsible for initiating and mainta
ining a stable tissue-specific open chromatin structure of a locus. In
transgenic mice, LCRs confer high level expression on linked genes in
dependent of position in the mouse genome. Here we show that an incomp
lete LCR loses this property when integrated into heterochromatic regi
ons. Two disruption mechanisms were observed. One is classical positio
n-effect variegation, resulting in continuous transcription in a clona
l subpopulation of cells. The other is a novel mechanism resulting in
intermittent gene transcription in all cells. We conclude that only a
complete LCR fully overcomes heterochromatin silencing and that it con
trols the level of transcription by ensuring activity in all cells at
all times rather than directly controlling the rate of transcription.