ArticleRNA (New York, N.Y.)2015
Unexpected selection to retain high GC content and splicing enhancers within exons of multiexonic lncRNA loci.
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 51 papers.
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Who cites it
51 citing papers in PubMed.
- Genomic indicators of gene function: a systematic assessment of the human genome.G3 (Bethesda, Md.) · 2026Article
- Article
- Genome biology of long non-coding RNAs in humans: A virtual karyotype.Computational and structural biotechnology journal · 2025Article
- The GC-content at the 5' ends of human protein-coding genes is undergoing mutational decay.Genome biology · 2024Article
- Genome-wide identification and functional profile analysis of long non-coding RNAs in Avicennia marina.The plant genome · 2024Article
- Transcription regulation by long non-coding RNAs: mechanisms and disease relevance.Nature reviews. Molecular cell biology · 2024Review
- Genome composition and GC content influence loci distribution in reduced representation genomic studies.BMC genomics · 2024Article
- Functional identification of cis-regulatory long noncoding RNAs at controlled false discovery rates.Nucleic acids research · 2024Article
- Exposure of volunteers to microgravity by dry immersion bed over 21 days results in gene expression changes and adaptation of T cells.Science advances · 2023Article
- False gene and chromosome losses in genome assemblies caused by GC content variation and repeats.Genome biology · 2022Article
- The activity of human enhancers is modulated by the splicing of their associated lncRNAs.PLoS computational biology · 2022Article
- Comparative genomics in the search for conserved long noncoding RNAs.Essays in biochemistry · 2021Article
- An exon-biased biophysical approach and NMR spectroscopy define the secondary structure of a conserved helical element within the HOTAIR long non-coding RNA.Journal of structural biology · 2021Article
- lncEvo: automated identification and conservation study of long noncoding RNAs.BMC bioinformatics · 2021Article
- CircRNA-1926 Promotes the Differentiation of Goat SHF Stem Cells into Hair Follicle Lineage by miR-148a/b-3p/Animals : an open access journal from MDPI · 2020Article
- Review
- Stable intronic sequence RNAs (sisRNAs) are selected regions in introns with distinct properties.BMC genomics · 2020Article
- Splicing of enhancer-associated lincRNAs contributes to enhancer activity.Life science alliance · 2020Article
- A Depletion of Stop Codons in lincRNA is Owing to Transfer of Selective Constraint from Coding Sequences.Molecular biology and evolution · 2020Article
- RNAsamba: neural network-based assessment of the protein-coding potential of RNA sequences.NAR genomics and bioinformatics · 2020Article
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2 authors.
Funding
Abstract
If sequencing was possible only for genomes, and not for RNAs or proteins, then functional protein-coding exons would be recognizable by their unusual patterns of nucleotide composition, specifically a high GC content across the body of exons, and an unusual nucleotide content near their edges. RNAs and proteins can, of course, be sequenced but the extent of functionality of intergenic long noncoding RNAs (lncRNAs) remains under question owing to their low nucleotide conservation. Inspired by the nucleotide composition patterns of protein-coding exons, we sought evidence for functionality across lncRNA loci from diverse species. We found that such patterns across multiexonic lncRNA loci mirror those of proteincoding genes, although to a lesser degree: Specifically, compared with introns, lncRNA exons are GC rich. Additionally we report evidence for the action of purifying selection to preserve exonic splicing enhancers within human multiexonic lncRNAs and nucleotide composition in fruit fly lncRNAs. Our findings provide evidence for selection for more efficient rates of transcription and splicing within lncRNA loci. Despite only a minor proportion of their RNA bases being constrained, multiexonic intergenic lncRNAs appear to require accurate splicing of their exons to transact their function.
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