Integrated functional and bioinformatics approach for the identification and experimental verification of RNA signals: application to HIV-1 INS.

ABSTRACT: Regulation of gene expression involves sequence elements in nucleic acids. In promoters, multiple sequence elements cooperate as functional modules, which in combination determine overall promoter activity. We previously developed computational tools based on this hierarchical structure for in silico promoter analysis. Here we address the functional organization of post-transcriptional control elements, using the HIV-1 genome as a model. Numerous mutagenesis studies demonstrate that expression of HIV structural proteins is restricted by inhibitory sequences (INS) in HIV mRNAs in the absence of the HIV-1 Rev protein. However, previous attempts to detect conserved sequence patterns of HIV-1 INS have failed. We defined four distinct sequence patterns for inhibitory motifs (weight matrices), w

SUBMITTER: Wolff H 

PROVIDER: S-EPMC156724 | biostudies-literature | 2003 Jun

REPOSITORIES: biostudies-literature