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Analysis of Expression, Mutation, and Alternative Splice Variants of Candidate Genes, MLO2 and MLO6A, Involved in Powdery Mildew Susceptibility in Mulberry (Morus spp.)
Mulberry is a fast-growing perennial crop commercially exploited as the sole source of food for the mulberry silkworm, Bombyx mori , for the...
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Integrin alpha 6 homozygous splice-site mutation causes a new form of junctional epidermolysis bullosa in Charolais cattle
BackgroundInherited epidermolysis bullosa (EB) is a group of painful and life-threatening genetic disorders that are characterized by mechanically...
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BaseScope™ Approach to Visualize Alternative Splice Variants in Tissue
Defining the cell-specific alternative splicing landscape in complex tissues is an important goal to gain functional insights. Deep-sequencing...
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ASAPA: a bioinformatic pipeline based on Iso-Seq that identifies the links among alternative splicing, alternative transcription initiation and alternative polyadenylation
Background: Although the events associated with alternative splicing (AS), alternative polyadenylation (APA) and alternative transcription initiation...
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High-Throughput RNA-HCR-FISH Detection of Endogenous Pre-mRNA Splice Variants
RNA-fluorescence in situ hybridization (RNA-FISH) is an essential and widely used tool for visualizing RNA molecules in intact cells. Recent advances...
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USP39 promotes hepatocellular carcinogenesis through regulating alternative splicing in cooperation with SRSF6/HNRNPC
Abnormal alternative splicing (AS) caused by alterations in spliceosomal factors is implicated in cancers. Standard models posit that splice site...
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Transcription Factors and Splice Factors—Interconnected Regulators of Stem Cell Differentiation
Purpose of ReviewThe underlying molecular mechanisms that direct stem cell differentiation into fully functional, mature cells remain an area of...
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Nucleotides in both donor and acceptor splice sites are responsible for choice in NAGNAG tandem splice sites
Among alternative splicing events in the human transcriptome, tandem NAGNAG acceptor splice sites represent an appreciable proportion. Both proximal...
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Hetero-pentamerization determines mobility and conductance of Glycine receptor α3 splice variants
Glycine receptors (GlyRs) are ligand-gated pentameric chloride channels in the central nervous system. GlyR-α3 is a possible target for chronic pain...
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Mapping intron retention events contributing to complex traits using splice quantitative trait locus
BackgroundAlternative splicing (AS) of mRNA plays an important roles in transcriptome diversity, involving regulation of plant growth and stress...
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A rare non-canonical splice site in Trema orientalis SYMRK does not affect its dual symbiotic functioning in endomycorrhiza and rhizobium nodulation
BackgroundNitrogen-fixing nodules occur in ten related taxonomic lineages interspersed with lineages of non-nodulating plant species. Nodules result...
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The proper interplay between the expression of Spo11 splice isoforms and the structure of the pseudoautosomal region promotes XY chromosomes recombination
XY chromosome missegregation is relatively common in humans and can lead to sterility or the generation of aneuploid spermatozoa. A leading cause of...
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Exact transcript quantification over splice graphs
BackgroundThe probability of sequencing a set of RNA-seq reads can be directly modeled using the abundances of splice junctions in splice graphs...
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Alternative splicing shapes the transcriptome complexity in blackgram [Vigna mungo (L.) Hepper]
Vigna mungo , a highly consumed crop in the pan-Asian countries, is vulnerable to several biotic and abiotic stresses. Understanding the...
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rMATS-turbo: an efficient and flexible computational tool for alternative splicing analysis of large-scale RNA-seq data
Pre-mRNA alternative splicing is a prevalent mechanism for diversifying eukaryotic transcriptomes and proteomes. Regulated alternative splicing plays...
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SPLICE-q: a Python tool for genome-wide quantification of splicing efficiency
BackgroundIntrons are generally removed from primary transcripts to form mature RNA molecules in a post-transcriptional process called splicing. An...
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Liver RBFOX2 regulates cholesterol homeostasis via Scarb1 alternative splicing in mice
RNA alternative splicing (AS) expands the regulatory potential of eukaryotic genomes. The mechanisms regulating liver-specific AS profiles and their...
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The physiology of alternative splicing
Alternative splicing is a substantial contributor to the high complexity of transcriptomes of multicellular eukaryotes. In this Review, we discuss...
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Knockout of circRNAs by base editing back-splice sites of circularized exons
Many circular RNAs (circRNAs) are produced from back-splicing of exons of precursor mRNAs and are generally co-expressed with cognate linear RNAs....
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Spliceator: multi-species splice site prediction using convolutional neural networks
BackgroundAb initio prediction of splice sites is an essential step in eukaryotic genome annotation. Recent predictors have exploited Deep Learning...
