ArticleGenome biology2010
Intronic motif pairs cooperate across exons to promote pre-mRNA splicing.
Article in Genome biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
22 citing papers in PubMed, 30 citations in OpenAlex.
- Single Antisense Oligonucleotides Correct Diverse Splicing Mutations in Hotspot Exons.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- What's Wrong in a Jump? Prediction and Validation of Splice Site Variants.Methods and protocols · 2021Review
- High Concentration of an ISS-N1-Targeting Antisense Oligonucleotide Causes Massive Perturbation of the Transcriptome.International journal of molecular sciences · 2021Article
- Transposon clusters as substrates for aberrant splice-site activation.RNA biology · 2021Article
- Pseudoexons of the DMD Gene.Journal of neuromuscular diseases · 2020Review
- Machine Learning Approaches for the Prioritization of Genomic Variants Impacting Pre-mRNA Splicing.Cells · 2019Review
- A birth of bipartite exon by intragenic deletion.Molecular genetics & genomic medicine · 2017Article
- Computational Identification of Tissue-Specific Splicing Regulatory Elements in Human Genes from RNA-Seq Data.PloS one · 2016Article
- CoSREM: a graph mining algorithm for the discovery of combinatorial splicing regulatory elements.BMC bioinformatics · 2015Article
- Differential connectivity of splicing activators and repressors to the human spliceosome.Genome biology · 2015Article
- Identifying splicing regulatory elements with de Bruijn graphs.Journal of computational biology : a journal of computational molecular cell biology · 2014Article
- The multiplicity of alternative splicing decisions in Caenorhabditis elegans is linked to specific intronic regulatory motifs and minisatellites.BMC genomics · 2014Article
- Reverse transcriptase and intron number evolution.Stem cell investigation · 2014Article
- HnRNPH1/H2, U1 snRNP, and U11 snRNP cooperate to regulate the stability of the U11-48K pre-mRNA.RNA (New York, N.Y.) · 2013Article
- A biophysical model for identifying splicing regulatory elements and their interactions.PloS one · 2013Article
- Frequent gain and loss of intronic splicing regulatory elements during the evolution of vertebrates.Genome biology and evolution · 2012Article
- Quantitative evaluation of all hexamers as exonic splicing elements.Genome research · 2011Article
- Signal- and development-dependent alternative splicing of LEF1 in T cells is controlled by CELF2.Molecular and cellular biology · 2011Article
- Networking in a global world: establishing functional connections between neural splicing regulators and their target transcripts.RNA (New York, N.Y.) · 2011Review
- Intronic motif pairs cooperate across exons to promote pre-mRNA splicing.Genome biology · 2010Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
backgroundA very early step in splice site recognition is exon definition, a process that is as yet poorly understood. Communication between the two ends of an exon is thought to be required for this step. We report genome-wide evidence for exons being defined through the combinatorial activity of motifs located in flanking intronic regions.
resultsStrongly co-occurring motifs were found to specifically reside in four intronic regions surrounding a large number of human exons. These paired motifs occur around constitutive and alternative exons but not pseudo exons. Most co-occurring motifs are limited to intronic regions within 100 nucleotides of the exon. They are preferentially associated with weaker exons. Their pairing is conserved in evolution and they exhibit a lower frequency of single nucleotide polymorphism when paired. Paired motifs display specificity with respect to distance from the exon borders and in constitutive versus alternative splicing. Many resemble binding sites for heterogeneous nuclear ribonucleoproteins. Specific pairs are associated with tissue-specific genes, the higher expression of which coincides with that of the pertinent RNA binding proteins. Tested pairs acted synergistically to enhance exon inclusion, and this enhancement was found to be exon-specific.
conclusionsThe exon-flanking sequence pairs identified here by genomic analysis promote exon inclusion and may play a role in the exon definition step in pre-mRNA splicing. We propose a model in which multiple concerted interactions are required between exonic sequences and flanking intronic sequences to effect exon definition.
Indexed as
Identifiers
What OpenQuestion holds
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.