CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3000
Accession number FJ210864
Name NII_GTB_IND_LTRCSWG1
SubtypeC
CountryIndia
Sampling year 2008

FJ210864 isolate has foldings of [Core poly(A) site] [USE domain, TAR, polyA] [USE region] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing Complete poly(A) region

The primary sequence:

tcaaccctca gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctctctaggt agaccagatc tgagcctggg agctctctgg ctatctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tctgagcagt gtgtgcccgt ctattgtgtg actctggtaa

Isolates with identical sequences of region:

EU574917(#3024) EU835832(#2958) FJ210866(#3043) FJ210867(#3044) FJ432056(#2966) FJ432057(#3047) FJ432063(#3053) FJ432064(#2967)

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012