CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2440
Accession number L28872
Name 2B3
SubtypeB
CountryUSA
Submitted to NCBI 1994
Patient2

L28872 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:

cgaaccctca gatgctgcat ataagcagct gctttttgcc tgtactgggt ctctctggtt agaccagatc tgagcctggg agctctctgg ctaactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccct tttagtcagt gtggaaaatc tctagca

Isolates with identical sequences of region:

L28869(#2437) L28870(#2438) L28871(#2439) L28873(#2441)

The optimal secondary structure:


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