We employed an in vitro cell-free transcription system to locate RNA polymerase II promoters on the hepatitis B virus genome. The strongest promoter precedes the surface antigen (HBsAg) gene, which is comprised of a long (500 base pairs) presurface region as well as the mature HBsAg coding sequence. The origin of this transcript was localized by using truncated templates and S1 endonuclease.mapping. The activity of the promoter was confirmed in transfection experiments in which the complete HBsAg gene was introduced into monkey kidney cells via a simian virus 40 expression vector. A second RNA polymerase II promoter preceding the HBcAg gene was also active in the cell-free system. The presence of multiple promoters in the hepatitis B virus genome suggests that the relative levels of viral-specific proteins detected in liver and serum may reflect differential or regulated promoter efficiency.Hepatitis B virus (HBV) is a partially singlestranded DNA virus whose host range is restricted to humans and chimpanzees (reviewed in reference 37). The complete nucleotide sequences of the cloned HBV (11,27,38,40) and the related woodchuck hepatitis virus (10) define the major viral protein coding regions. The organization of genetic information is compact: four reading frames (A, B, C, and S) are found in the viral long strand and one small open reading frame (D) is found in the short strand. The viral surface (S) and core (C) protein coding sequences have been identified and incorporated into both procaryotic (9, 27) and eucaryotic (8, 19a, 25, 32, 35) expression vectors, generating products that react with antibodies directed against these antigens (HBsAg and HBcAg). The predicted sequences suggest that the surface antigen is a transmembrane protein, whereas on the basis of the protamine-like COOH terminal region (40), the core antigen is a DNAbinding protein. The S gene has a long 5' leader sequence and the C gene has a shorter 5' leader upstream from the mature coding regions, suggesting that both proteins could be synthesized as precursors. Of the remaining two long-strand open reading frames, the larger (A, -80% of the viral genome) presumably encodes the viral DNA polymerase. This gene overlaps part of the C gene, all of the S gene, and part of the B gene but would be translated with a different register. No specific protein has yet been associated with the smaller reading frame (B).This sequence information has not resulted in a detailed characterization of HBV promoters of RNA transcripts, mainly due to the lack of a reproducible tissue culture system for viral propagation. The definition of HBV promoters is important for (i) determining how the viral genetic information is expressed, (ii) assessing a possible oncogenic role of integrated HBV sequences, and (iii) studying replication, which has recently been proposed to involve reverse transcription of a full-length viral RNA transcript (36). The HBV DNA sequence provides some information on potential transcription signals such as TATA boxes and AATAAA-directed p...