CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2598
Accession number U89865
Name L_47
SubtypeB
CountryItaly
Sampling year 1996
PatientSG1

U89865 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 DIS SD and Psi hairpins

The primary sequence:

ggactcggct tgctgaagcg cgcacagcaa gaggcgaggg gcggcgactg gtgagtacgc caaaaatttt gactagcgga ggctagaagg agaga

Isolates with identical sequences of region:

AY508141(#3532) AY856964(#1597) AY857063(#1637) EF178328(#1615) EF178426(#1707) EF514707(#1017) EF514708(#1018) FJ195089(#1201) U43096(#2501) Z11530(#2600)

The optimal secondary structure:


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