CESSHIV-1 DATABASE
Control Elements Secondary Structures of HIV-1 genome
About CESSHIV-1 database
PBS region
Secondary structures
... by Accession number
... by Assigned number
Frequent base changes
PBS hairpins
U5 hairpins
DIS, SD and Psi region
Secondary structure
... by Accession number
... by Assigned number
DIS variants
SD variants
Psi variants
Evolution schemes
3' poly(A) region
USE region
... by Accession number
... by Assigned number
USE domain, TAR, polyA
... by Accession number
... by Assigned number
USE, TAR, polyA
... by Accession number
... by Assigned number
123 nt 3' terminus
... by Accession number
... by Assigned number
Core poly(A) site
... by Accession number
... by Assigned number
Complete poly(A) region
... by Accession number
... by Assigned number
227 nt 3' terminus
... by Accession number
... by Assigned number
Publications
Optimal and suboptimal structures of most frequent Psi variants above the error level 0.5%
[ ΔΔG in kcal/mol is given in brackets ]
Psi
RS
+ A (Ψ
RS
)
C + Psi
RS
+ AG (Ψ
C
GAxA
)
CU + Psi
RS
+ AG (Ψ
CU-AG
)
U + Psi
RS
+ AG (Ψ
U-A
)
UU + Psi
RS
+ AG
Psi
1A
(Ψ
1A
)
UUU + Psi
1A
+ AG (Ψ
1A
3U
)
UUUU + Psi
1A
+ AG (Ψ
1A
4U
)
UUUUU + Psi
1A
+ AG (Ψ
1A
5U
)
Psi
12A
+ A (Ψ
12A
)
U + Psi
12A
+ AG (Ψ
12A
U-A
)
UUUU + Psi
1A,12A
+ AG (Ψ
1A,12A
4U
)
UUUU + Psi
1A,21G
+ AG (Ψ
1A,21G
4U
)