CESSHIV-1 database

General information on HIV-1 isolate

# 3005

Accession number	L28843
Name	1B11
Subtype	B
Country	USA
Submitted to NCBI	1994
Patient	1

L28843 isolate has foldings of [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:

cgagccctca gatgctgcat ataagcagct gctttttgcc tgtactgggt ctctcttgtt agaccagatc cgagcctggg agctctctgg ctaactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gtgtgcccgt ytgttatgtg actttggtag ctagagaayc cttagaccct ttaagtcagt gtggaaaatc tctagca

The optimal secondary structure:

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