Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 800
Accession number AB253677
Name pJPDR3730AE21
Submitted to NCBI 2006

AB253677 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:

ctaaccctca gatgctgcat aaaagcagcc gctttc-gctt gtactgggtc tctcttgtta gaccaggtc-g agcccgggag ctctctggct agcaggggaa cccactgctt aagcctcaat aaagcttgcc ttgagtgctt aaagtggtgt gtgcccattt gtgtcaggac tctggtaact agagatccct cagaccactc tagactgagt a-aaaatctct agca

Isolates with identical sequences of region:

AB253636(#759) AB253673(#796) AB253674(#797) AB253675(#798)

The optimal secondary structure:

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