Figure 3. Sequences of Int-Protected Junction-type Sites.

All sequences are written 5′ to 3′. (A) Non-att junction-type sites. Protection profiles of pBR322 3511 and 3755 are shown in Figures 1B and 1C, and of “bio” in Ross et al. (1979). Sequences are aligned according to homology, and the numerical coordinates given are from the published sequences (“bio”—Landy and Ross, 1977; Ross et al., 1979; pBR322—Sutcliffe, 1979). Homologous positions are presented in large type. Approximate boundaries of footprint protection are indicated for DNAase I (○) and NCS (●). Definition of very precise boundaries is not possible because not all positions are good substrates for the reagents used (NCS is A+T-specific, see D’Andrea and Hazeltine, 1978). (B) Sequences of both left and right core–arm junctions from attP and attB aligned according to homology among them and homology with the non-att sites in (A). Numbering is from Landy and Ross (1977) and protection boundaries are from Ross et al. (1979). Boundaries of the right side of the two attP sites incorporate data from NCS-sensitive central core positions (Ross et al., 1982). (C) Sequences from the left and right sides of the int155 site. Regions of homology to other sites in (A) and (B) are in large letters. The pairs of sites in (B) and (C) are present in inverted orientation and with identical spacing in the attP, attB and int155 sites (see Figures 2 and 5).