ArticleGenome research2011
Post-transcriptional exon shuffling events in humans can be evolutionarily conserved and abundant.
Article in Genome research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed.
- Detecting intragenic trans-splicing events from non-co-linearly spliced junctions by hybrid sequencing.Nucleic acids research · 2023Article
- Assessing the impacts of various factors on circular RNA reliability.Life science alliance · 2023Article
- The Role of Circular RNAs in the Physiology and Pathology of the Mammalian Ovary.International journal of molecular sciences · 2022Review
- Mechanism and Function of Circular RNA in Regulating Solid Tumor Radiosensitivity.International journal of molecular sciences · 2022Review
- CircRNAs: Insights into Gastric Cancer.Gastrointestinal tumors · 2021Review
- Circular RNAs: Expression, localization, and therapeutic potentials.Molecular therapy : the journal of the American Society of Gene Therapy · 2021Review
- Biliary-Atresia-Associated Mannosidase-1-Alpha-2 Gene Regulates Biliary and Ciliary Morphogenesis and Laterality.Frontiers in physiology · 2020Article
- Past, present, and future of circRNAs.The EMBO journal · 2019Review
- LncRNAs and PRC2: Coupled Partners in Embryonic Stem Cells.Epigenomes · 2019Review
- Comment on "A comprehensive overview and evaluation of circular RNA detection tools".PLoS computational biology · 2019Article
- NCLcomparator: systematically post-screening non-co-linear transcripts (circular, trans-spliced, or fusion RNAs) identified from various detectors.BMC bioinformatics · 2019Article
- Mouse Model of Congenital Heart Defects, Dysmorphic Facial Features and Intellectual Developmental Disorders as a Result of Non-functional CDK13.Frontiers in cell and developmental biology · 2019Article
- Integrative transcriptome sequencing reveals extensive alternative trans-splicing and cis-backsplicing in human cells.Nucleic acids research · 2018Article
- Evolutionary Insights into RNA trans-Splicing in Vertebrates.Genome biology and evolution · 2016Review
- Article
- NCLscan: accurate identification of non-co-linear transcripts (fusion, trans-splicing and circular RNA) with a good balance between sensitivity and precision.Nucleic acids research · 2016Article
- PTESFinder: a computational method to identify post-transcriptional exon shuffling (PTES) events.BMC bioinformatics · 2016Article
- Exon-intron circular RNAs regulate transcription in the nucleus.Nature structural & molecular biology · 2015Article
- Hypothesis: Artifacts, Including Spurious Chimeric RNAs with a Short Homologous Sequence, Caused by Consecutive Reverse Transcriptions and Endogenous Random Primers.Journal of Cancer · 2015Review
- Genome-wide analysis of drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation.Cell reports · 2014Article
Corrections and comments
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Authors and funding
14 authors.
Funding
Abstract
In silico analyses have established that transcripts from some genes can be processed into RNAs with rearranged exon order relative to genomic structure (post-transcriptional exon shuffling, or PTES). Although known to contribute to transcriptome diversity in some species, to date the structure, distribution, abundance, and functional significance of human PTES transcripts remains largely unknown. Here, using high-throughput transcriptome sequencing, we identify 205 putative human PTES products from 176 genes. We validate 72 out of 112 products analyzed using RT-PCR, and identify additional PTES products structurally related to 61% of validated targets. Sequencing of these additional products reveals GT-AG dinucleotides at >95% of the splice junctions, confirming that they are processed by the spliceosome. We show that most PTES transcripts are expressed in a wide variety of human tissues, that they can be polyadenylated, and that some are conserved in mouse. We also show that they can extend into 5' and 3' UTRs, consistent with formation via trans-splicing of independent pre-mRNA molecules. Finally, we use real-time PCR to compare the abundance of PTES exon junctions relative to canonical exon junctions within the transcripts from seven genes. PTES exon junctions are present at <0.01% to >90% of the levels of canonical junctions, with transcripts from MAN1A2, PHC3, TLE4, and CDK13 exhibiting the highest levels. This is the first systematic experimental analysis of PTES in human, and it suggests both that the phenomenon is much more widespread than previously thought and that some PTES transcripts could be functional.
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