CESSHIV-1 database

General information on HIV-1 isolate

# 2039

Accession number	AY610979
Name	03SP96716
Subtype	BH
Country	Spain (Equatorial Guinea)
Sampling year	2003

AY610979 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 123 nt 3' terminus

The primary sequence:

cactgcttaa gcctcaataa agcttgcctt gagtgcttta agtagtgtgt gcccgtctgt tgtgtgactc tggtaactag agatccctca gaccatttta gtcagtgtgg aaaatctcta gca

Isolates with identical sequences of region:

AF069140(#52) AY455780(#397) EF125628(#3457) EF125629(#3458) EF125630(#3459) EF370220(#1716) EF370242(#1719) EF370300(#1751) EF370305(#1753) EF370314(#1762) EF370385(#2262) EU047626(#1828) EU047627(#1829) EU047628(#1830) EU047629(#1831) EU047630(#1832) EU047634(#1833) EU047645(#1843) EU047650(#1846) FJ771006(#1852)

The optimal secondary structure:

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