CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3116
Accession number DQ848404
Name ic1
SubtypeB
CountryUSA
Sampling year 1990
PatientC-child

DQ848404 isolate has foldings of [USE domain, TAR, polyA] [USE region] [USE, TAR, polyA] .

The region encompassing USE, TAR, polyA

The primary sequence:

agcagctgct ttttgcctgt actgggtctc tctagctaga ccagatctga gcctgggagc tctctggctg actagggaac ccactgctta agcctcaata aagcttgcct tgagtgcttc aagtagtgt

Isolates with identical sequences of region:

DQ848405(#3117) DQ848406(#3118) DQ848407(#3119) DQ848408(#3120) DQ848409(#3121) DQ848411(#3123) DQ848416(#3128) DQ848422(#3010)

The optimal secondary structure:


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