CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2282
Accession number EU938086
Name 99RU553
SubtypeA
CountryRussia
Sampling year 1999

EU938086 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 Core poly(A) site

The primary sequence:

ctgggtctct ctggttagac cagatc-gagc ctgggagctc tctggctagc tagggaaccc actgcttaag cctcaataaa gcttgccttg agtgctttaa gtagtgtgtg cccgtctgtt gtatgactct ggtaa

Isolates with identical sequences of region:

AF413990(#1355) EU938080(#2276) EU938087(#2283) EU938093(#2289) EU938094(#2290) EU938095(#2291) EU938098(#2294) EU938099(#2295) EU938102(#2298) EU938104(#2300) EU938107(#2303) EU938109(#2305) EU938110(#2306) EU938112(#2308) EU938118(#2314) HM583636(#3876)

The optimal secondary structure:


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