CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2421
Accession number L28853
Name 1B5
SubtypeB
CountryUSA
Submitted to NCBI 1994
Patient1

L28853 isolate has foldings of [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 227 nt 3' terminus

The primary sequence:

cgagccctca gatgctgcat ataagcggct gctttttgcc tgtactgggt ctctcttgtt agaccagatc cgagcctggg agctctctgg ctaactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gtgtgcccgt ctgttgtg--ac tctggtagct agagaaccct cagacccttt tagtcagtgt ggaaaatctc tagca

Isolates with identical sequences of region:

L28854(#2422)

The optimal secondary structure:


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