ArticleRNA (New York, N.Y.)2016
Sequencing of lariat termini in S. cerevisiae reveals 5' splice sites, branch points, and novel splicing events.
Article in RNA (New York, N.Y.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
29 citing papers in PubMed, 41 citations in OpenAlex.
- OpenASO: RNA Rescue-designing splice-modulating antisense oligonucleotides through community science.RNA (New York, N.Y.) · 2025Article
- DBR1 orchestrates the fate of lariat RNA: debranching-dependent turnover and function.Nucleic acids research · 2025Review
- Intron lariat spliceosomes convert lariats to true circles: implications for intron transposition.Genes & development · 2024Article
- THUMPD2 catalyzes the N2-methylation of U6 snRNA of the spliceosome catalytic center and regulates pre-mRNA splicing and retinal degeneration.Nucleic acids research · 2024Article
- Intron-lariat spliceosomes convert lariats to true circles: implications for intron transposition.bioRxiv : the preprint server for biology · 2024Article
- Impact on splicing inRNA (New York, N.Y.) · 2023Article
- Variations of intronic branchpoint motif: identification and functional implications in splicing and disease.Communications biology · 2023Review
- Profiling lariat intermediates reveals genetic determinants of early and late co-transcriptional splicing.Molecular cell · 2022Article
- Characterization of cross-species transcription and splicing from Penicillium to Saccharomyces cerevisiae.Journal of industrial microbiology & biotechnology · 2021Article
- Saccharomyces cerevisiae RNA lariat debranching enzyme, Dbr1p, is required for completion of reverse transcription by the retrovirus-like element Ty1 and cleaves branched Ty1 RNAs.Molecular genetics and genomics : MGG · 2021Article
- Dangerous Stops: Nonsense Mutations Can Dramatically Increase Frequency of Prion Conversion.International journal of molecular sciences · 2021Article
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- Rapidly evolving protointrons in Saccharomyces genomes revealed by a hungry spliceosome.PLoS genetics · 2019Article
- Chemical Inhibition of Pre-mRNA Splicing in Living Saccharomyces cerevisiae.Cell chemical biology · 2019Article
- Excised linear introns regulate growth in yeast.Nature · 2019Article
- Pre-mRNA Splicing in the Nuclear Landscape.Cold Spring Harbor symposia on quantitative biology · 2019Article
- Structural basis for the second step of group II intron splicing.Nature communications · 2018Article
- Functional analysis of Hsh155/SF3b1 interactions with the U2 snRNA/branch site duplex.RNA (New York, N.Y.) · 2018Article
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Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
Abstract
Pre-mRNA splicing is a central step in the shaping of the eukaryotic transcriptome and in the regulation of gene expression. Yet, due to a focus on fully processed mRNA, common approaches for defining pre-mRNA splicing genome-wide are suboptimal-especially with respect to defining the branch point sequence, a key cis-element that initiates the chemistry of splicing. Here, we report a complementary intron-centered approach designed to more efficiently, simply, and directly define splicing events genome-wide. Specifically, we developed a method distinguished by deep sequencing of lariat intron termini (LIT-seq). In a test of LIT-seq using the budding yeast Saccharomyces cerevisiae, we not only successfully captured the majority of annotated, expressed splicing events but also uncovered 45 novel splicing events, establishing the sensitivity of LIT-seq. Moreover, our libraries were highly enriched with reads that reported on splice sites; by a simple and direct inspection of sequencing reads, we empirically defined both 5' splice sites and branch sites, as well as their consensus sequences, with nucleotide resolution. Additionally, our study revealed that the 3' termini of lariat introns are subject to nontemplated addition of adenosines, characteristic of signals sensed by 3' to 5' RNA turnover machinery. Collectively, this work defines a novel, genome-wide approach for analyzing splicing with unprecedented depth, specificity, and resolution.
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Registered trials
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.