ArticleRNA (New York, N.Y.)2015
Comparison of splice sites reveals that long noncoding RNAs are evolutionarily well conserved.
Article in RNA (New York, N.Y.), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 papers.
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Who cites it
53 citing papers in PubMed.
- Non-coding RNAs in congenital heart disease and placental development: Bridging molecular mechanisms to clinical biomarkers and therapies.Non-coding RNA research · 2026Review
- Identification of lncRNA expression profiles associated with ovarian development and ageing process in mice.Journal of applied genetics · 2025Article
- The emerging roles of long non-coding RNAs in the nervous system.Nature reviews. Neuroscience · 2025Review
- Article
- Unbiased anchors for reliable genome-wide synteny detection.Algorithms for molecular biology : AMB · 2025Article
- GENCODE: massively expanding the lncRNA catalog through capture long-read RNA sequencing.bioRxiv : the preprint server for biology · 2024Article
- lncRNAs as prognostic markers and therapeutic targets in cuproptosis-mediated cancer.Clinical and experimental medicine · 2024Review
- ANRIL, H19 and TUG1: a review about critical long non-coding RNAs in cardiovascular diseases.Molecular biology reports · 2023Review
- Tailored machine learning models for functional RNA detection in genome-wide screens.NAR genomics and bioinformatics · 2023Article
- Long non-coding RNAs: definitions, functions, challenges and recommendations.Nature reviews. Molecular cell biology · 2023Review
- Evolutionary Conservation of RNA Secondary Structure.Methods in molecular biology (Clifton, N.J.) · 2023Article
- ExceS-A: an exon-centric split aligner.Journal of integrative bioinformatics · 2022Article
- The evolutionary landscape and expression pattern of plant lincRNAs.RNA biology · 2022Article
- Comparative genomics in the search for conserved long noncoding RNAs.Essays in biochemistry · 2021Article
- A Novel Regulatory Player in the Innate Immune System: Long Non-Coding RNAs.International journal of molecular sciences · 2021Review
- On the functional relevance of spatiotemporally-specific patterns of experience-dependent long noncoding RNA expression in the brain.RNA biology · 2021Review
- Decoding LncRNAs.Cancers · 2021Review
- In Vitro Silencing of lncRNA Expression Using siRNAs.Methods in molecular biology (Clifton, N.J.) · 2021Article
- From Junk to Function: LncRNAs in CNS Health and Disease.Frontiers in molecular neuroscience · 2021Review
- Are spliced ncRNA host genes distinct classes of lncRNAs?Theory in biosciences = Theorie in den Biowissenschaften · 2020Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Large-scale RNA sequencing has revealed a large number of long mRNA-like transcripts (lncRNAs) that do not code for proteins. The evolutionary history of these lncRNAs has been notoriously hard to study systematically due to their low level of sequence conservation that precludes comprehensive homology-based surveys and makes them nearly impossible to align. An increasing number of special cases, however, has been shown to be at least as old as the vertebrate lineage. Here we use the conservation of splice sites to trace the evolution of lncRNAs. We show that >85% of the human GENCODE lncRNAs were already present at the divergence of placental mammals and many hundreds of these RNAs date back even further. Nevertheless, we observe a fast turnover of intron/exon structures. We conclude that lncRNA genes are evolutionary ancient components of vertebrate genomes that show an unexpected and unprecedented evolutionary plasticity. We offer a public web service (http://splicemap.bioinf.uni-leipzig.de) that allows to retrieve sets of orthologous splice sites and to produce overview maps of evolutionarily conserved splice sites for visualization and further analysis. An electronic supplement containing the ncRNA data sets used in this study is available at http://www.bioinf.uni-leipzig.de/publications/supplements/12-001.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.