Conservation of the Nuclear Receptor Response Element in HIV-1 LTRs: A Possible PPAR Response Element?
Figure 2
Analysis of the NRRE-1-DE in HIV-1 isolates from France. (a) The HIV-1 5′-LTR sequences from the isolates were aligned with Clustal W Omega and coloured with Boxshade, with the identical nucleotides shaded black and similar nucleotides coloured grey. The location of the NRRE-1-DE is indicated above the sequence. The consensus sequence is shown below the alignment. (b) Sequence logo of the NRRE-1-DE region in the HIV-1 LTRs from viral isolates from France. The individual nucleotides are coloured as follows: thymine, red; guanine, yellow; adenine, green; cytosine, blue. The height of each nucleotide letter indicates its relative frequency at that position within the motif. The presence of more than one nucleotide at a given position indicates the relative occurrence of those nucleotides at that location within the sequence. The GenBank accession numbers for the source sequences are DQ336074.1, DQ336076.1, DQ336081.1–DQ336085.1, DQ336087.1, DQ336089.1, DQ336091.1, and DQ336091.1.
