CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1341
Accession number AY452661
Name PHD79C1
SubtypeC
CountryEthiopia
Sampling year 1997
Patient79

AY452661 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:

ccaaccctca gatgctgcat ataagcagct gcttttcgct tgtactgggt ctctctaggt agaccagatc tgagcctggg agctctctgg tcttctgggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gtgtgcccgt ctgttgtgtg actctggtaa

Isolates with identical sequences of region:

AY452657(#1337) AY452660(#1340)

The optimal secondary structure:


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