CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1592
Accession number AM076890
Name PG28_5
SubtypeC
CountryMozambique
Sampling year 2003
PatientPG28

AM076890 isolate has foldings of [DIS region] [PBS region] [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [USE region] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing 227 nt 3' terminus

The primary sequence:

ccagccctca gatgctgcat ataagcagct gctttttgcc tgtacggggt ctctctaggt agaccagatc tgagcccggg agctctctgg atacctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tctaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccct ttgtggtagt gtggaaaatc tctagca

Isolates with identical sequences of region:

AM076889(#1591)

The optimal secondary structure:


The suboptimal structures within ΔΔG ≤ 4 kcal/mole of the minimum free energy

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012