CESSHIV-1 database

General information on HIV-1 isolate

# 966

Accession number	EF363124
Name	ES4-24
Subtype	B
Country	USA
Sampling year	2004
Patient	ES4

EF363124 isolate has foldings of [DIS region] [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 USE domain, TAR, polyA

The primary sequence:

cgagccctca gatgctgcat ataagcagct gctttttgcc tgtactgggt ctctctggtt agaccagatc tgagcctggg agctctctgg ctaactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gt

Isolates with identical sequences of region:

AB221005(#685) AB253432(#914) AF003888(#1197) AF004394(#22) AF538303(#1076) AY610991(#2052) D86068(#1094) DQ672623(#1433) DQ848467(#3633) DQ848471(#3637) DQ848472(#3638) DQ848491(#3657) FJ432066(#3054) K02083(#70) L31963(#2368) M58174(#3443) M58175(#3734) M58180(#3739) M58181(#2969) M58190(#3747) M58193(#3749) M58195(#3751) M58199(#3755) M58203(#3759) M58205(#3761) M58206(#3762) M58209(#3765) M58236(#3791) M58237(#3792) M58238(#3793) M58240(#3795) M58241(#3796) M58242(#3797) M58243(#3798) M58244(#3799) M58245(#3800) M58247(#3802) M58249(#3804) M58251(#3806) M58253(#3808) M58256(#3811) M58266(#3821) M58275(#3830) U80510(#2529) U80521(#2540) U80530(#2549) U80534(#2553) U81464(#2569) U81465(#2570) U81470(#2575)

The optimal secondary structure:

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