ArticleGenome research2005
Dichotomous splicing signals in exon flanks.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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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
40 citing papers in PubMed.
- Potential and Optimization of Mammalian Splice Riboswitches for the Regulation of Exon Skipping-Dependent Gene Expression and Isoform Switching within theACS synthetic biology · 2025Article
- Alternative Splicing: A Critical Regulator in Human Bone Biology and Tumor Progression.Research (Washington, D.C.) · 2025Review
- The identification of protein and RNA interactors of the splicing factor Caper in the adultFrontiers in molecular neuroscience · 2023Article
- Relevance and Regulation of Alternative Splicing in Plant Heat Stress Response: Current Understanding and Future Directions.Frontiers in plant science · 2022Review
- Transcription Regulation Through Nascent RNA Folding.Journal of molecular biology · 2021Review
- Deep Intronic Mutation in SERPING1 Caused Hereditary Angioedema Through Pseudoexon Activation.Journal of clinical immunology · 2020Article
- RNA-Seq Analysis of an Antisense Sequence Optimized for Exon Skipping in Duchenne Patients Reveals No Off-Target Effect.Molecular therapy. Nucleic acids · 2018Article
- Saturation mutagenesis reveals manifold determinants of exon definition.Genome research · 2018Article
- Splicing and transcription touch base: co-transcriptional spliceosome assembly and function.Nature reviews. Molecular cell biology · 2017Review
- Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing.Scientific reports · 2016Article
- Context-dependent control of alternative splicing by RNA-binding proteins.Nature reviews. Genetics · 2014Review
- A functional conserved intronic G run in HIV-1 intron 3 is critical to counteract APOBEC3G-mediated host restriction.Retrovirology · 2014Article
- Interplay between DMD point mutations and splicing signals in Dystrophinopathy phenotypes.PloS one · 2013Article
- Role of pseudoexons and pseudointrons in human cancer.International journal of cell biology · 2013Review
- Discovering weighted patterns in intron sequences using self-adaptive harmony search and back-propagation algorithms.TheScientificWorldJournal · 2013Article
- Dual role of G-runs and hnRNP F in the regulation of a mutation-activated pseudoexon in the fibrinogen gamma-chain transcript.PloS one · 2013Article
- Quantitative evaluation of all hexamers as exonic splicing elements.Genome research · 2011Article
- TIA1 prevents skipping of a critical exon associated with spinal muscular atrophy.Molecular and cellular biology · 2011Article
- Functional selection and systematic analysis of intronic splicing elements identify active sequence motifs and associated splicing factors.Nucleic acids research · 2010Article
- Stoichiometry of a regulatory splicing complex revealed by single-molecule analyses.The EMBO journal · 2010Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Intronic elements flanking the splice-site consensus sequences are thought to play a role in pre-mRNA splicing. However, the generality of this role, the catalog of effective sequences, and the mechanisms involved are still lacking. Using molecular genetic tests, we first showed that the approximately 50-nt intronic flanking sequences of exons beyond the splice-site consensus are generally important for splicing. We then went on to characterize exon flank sequences on a genomic scale. The G+C content of flanks displayed a bimodal distribution reflecting an exaggeration of this base composition in flanks relative to the gene as a whole. We divided all exons into two classes according to their flank G+C content and used computational and statistical methods to define pentamers of high relative abundance and phylogenetic conservation in exon flanks. Upstream pentamers were often common to the two classes, whereas downstream pentamers were totally different. Upstream and downstream pentamers were often identical around low G+C exons, and in contrast, were often complementary around high G+C exons. In agreement with this complementarity, predicted base pairing was more frequent between the flanks of high G+C exons. Pseudo exons did not exhibit this behavior, but rather tended to form base pairs between flanks and exon bodies. We conclude that most exons require signals in their immediate flanks for efficient splicing. G+C content is a sequence feature correlated with many genetic and genomic attributes. We speculate that there may be different mechanisms for splice site recognition depending on G+C content.
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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.