Journal
NUCLEIC ACIDS RESEARCH
Volume 39, Issue 22, Pages 9720-9730Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkr684
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Funding
- National Institutes of Health [RO1 GM083187, NIH GM074688]
- Prader-Willi Research Foundation USA
- Shire Human Genetic Therapies
- European Comission [EURASNET-LSHG-CT-2005-518238]
- Spanish Ministry of Science [BIO2008-01091]
- ICREA Funding Source: Custom
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We describe a new method that allows cloning of double-stranded RNAs (dsRNAs) that are generated in RNase protection experiments. We demonstrate that the mouse C/D box snoRNA MBII-85 (SNORD116) is processed into at least five shorter RNAs using processing sites near known functional elements of C/D box snoRNAs. Surprisingly, the majority of cloned RNAs from RNase protection experiments were derived from endogenous cellular RNA, indicating widespread antisense expression. The cloned dsRNAs could be mapped to genome areas that show RNA expression on both DNA strands and partially overlapped with experimentally determined argonaute-binding sites. The data suggest a conserved processing pattern for some C/D box snoRNAs and abundant expression of longer, non-coding RNAs in the cell that can potentially form dsRNAs.
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