CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3142
Accession number AY610985
Name 02SP78160
SubtypeC
CountrySpain (Equatorial Guinea)
Sampling year 2002
Patient78160

AY610985 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:

ccagccctca gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctctctgggt agaccagatc tgagcctggg agctctctgg ctatctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tctaagtagt gtgtgcccgt ctgttgtgtg actctggtaa

Isolates with identical sequences of region:

AB191659(#1023) AY610960(#1994) AY932699(#2169)

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