Journal
NATURE STRUCTURAL & MOLECULAR BIOLOGY
Volume 17, Issue 8, Pages 1030-U146Publisher
NATURE PUBLISHING GROUP
DOI: 10.1038/nsmb.1841
Keywords
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Funding
- Australian Research Council [FF0561986, DP0988851]
- Australian National Health and Medical Research Council [358300]
- Sydney Cancer Centre Foundation
- Cancer Institute NSW
- NSW Cancer Council
- Cure The Future Foundation
- Australian National Health and Medical Research Council
- Australian Research Council [DP0988851, FF0561986] Funding Source: Australian Research Council
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We have recently shown that transcription initiation RNAs (tiRNAs) are derived from sequences immediately downstream of transcription start sites. Here, using cytoplasmic and nuclear small RNA high-throughput sequencing datasets, we report the identification of a second class of nuclear-specific similar to 17- to 18-nucleotide small RNAs whose 3' ends map precisely to the splice donor site of internal exons in animals. These splice-site RNAs (spliRNAs) are associated with highly expressed genes and show evidence of developmental stage-and region-specific expression. We also show that tiRNAs are localized to the nucleus, are enriched at chromatin marks associated with transcription initiation and possess a 3'-nucleotide bias. Additionally, we find that microRNA-offset RNAs (moRNAs), the miR-15/16 cluster previously linked to oncosuppression and most small nucleolar RNA (snoRNA)-derived small RNAs (sdRNAs) are enriched in the nucleus, whereas most miRNAs and two H/ACA sdRNAs are cytoplasmically enriched. We propose that nuclear-localized tiny RNAs are involved in the epigenetic regulation of gene expression.
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