Conservation of the Nuclear Receptor Response Element in HIV-1 LTRs: A Possible PPAR Response Element?
Figure 5
The NRRE-1-DE sequence in the 5′-LTR sequences of HIV-1 isolates from India. (a) The 5′-LTRs of the HIV-1 isolates for which the whole sequence was available were aligned with Clustal W Omega and then coloured with Boxshade, with identical nucleotides shown in black and similar nucleotides in grey. The NRRE-1-DE sequence is indicated above the alignment. (b) The consensus sequence of the NRRE-1-DE represented using Weblogo, showing conservation of the nucleotides at most positions but with evidence of degeneracy at position 131. The colour scheme is as indicated for Figure 2. The GenBank accession numbers for the source sequences are HQ202921.1–HQ202943.1.
