CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2222
Accession number EF178611
Name K284 (K285)
SubtypeC
CountryIndia
Submitted to NCBI 2006

EF178611 isolate has foldings of [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 Complete poly(A) region

The primary sequence:

tcaaccctca gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctttctaggt agaccagatc tgagcccggg agctctctgg ctatctaggg agcccactgc ttaagcctca ataaagcttg ccttgagtgc tctaagtagt gtgtgcccgt ctgttgtgtg actctggtaa

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