CESSHIV-1 database

General information on HIV-1 isolate

# 35

Accession number	U54771
Name	CM240
Subtype	CRF01_AE
Country	Thailand
Sampling year	1990
Patient	CM240

U54771 isolate has foldings of [DIS region] [PBS region] [Core poly(A) site] [123nt 3' terminus] .

The region encompassing DIS SD and Psi hairpins

The primary sequence:

ggactcggct tgctgaggtg cacacagcaa gaggcgagag -cggcgactgg tgagtacgcc aaa--ttttgac tagcggaggc tagaaggaga ga

Isolates with identical sequences of region:

AB032741(#121) AB049811(#119) AB052602(#1058) AB052605(#1061) AB052609(#1065) AB052612(#1068) AB052995(#168) AB070352(#163) AB070353(#164) AB097867(#266) AB097872(#271) AB220944(#727) AB220947(#730) AB220948(#731) AB253424(#907) AB253425(#908) AB371876(#3501) AB468574(#1389) AB485652(#2732) AB485653(#2733) AF197339(#228) AF259954(#85) AF259955(#86) AJ866554(#535) AY857079(#1640) AY857093(#1644) BD187399(#1087) DQ234790(#567) DQ366663(#824) DQ366666(#826) DQ859179(#756) DQ859180(#757) EF495062(#980) EU031914(#1028) FJ614938(#2355) FJ670515(#3247) U51189(#370)

The optimal secondary structure:

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