A selection system for identifying accessible sites in target RNAs

Wei Hua Pan, Heidi F. Devlin, Colleen Kelley, Harriet C. Isom, Gary A. Clawson

Research output: Contribution to journalArticlepeer-review

31 Scopus citations


Although ribozymes offer tremendous potential for posttranscriptionally controlling expression of targeted genes, their utility is often limited by the accessibility of the targeted regions within the RNA transcripts. Here we describe a method that identifies RNA regions that are accessible to oligonucleotides. Based on this selection protocol, we show that construction of hammerhead ribozymes targeted to the identified regions results in catalytic activities that are consistently and substantially greater than those of ribozymes designed on the basis of computer modeling. Identification of accessible sites should also be widely applicable to design of antisense oligonucleotides and DNAzymes.

Original languageEnglish (US)
Pages (from-to)610-621
Number of pages12
Issue number4
StatePublished - 2001

All Science Journal Classification (ASJC) codes

  • Molecular Biology


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