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Related Concept Videos

Alternative RNA Splicing02:18

Alternative RNA Splicing

Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
Alternative RNA Splicing02:18

Alternative RNA Splicing

Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
Exon Recombination02:32

Exon Recombination

The evolution of new genes is critical for speciation. Exon recombination, also known as exon shuffling or domain shuffling, is an important means of new gene formation. It is observed across vertebrates, invertebrates, and in some plants such as potatoes and sunflowers. During exon recombination, exons from the same or different genes recombine and produce new exon-intron combinations, which might evolve into new genes. 
Exon shuffling follows “splice frame rules.” Each exon has three reading...
RNA Splicing01:32

RNA Splicing

Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...

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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
08:35

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

Dynamic usage of alternative splicing exons during mouse retina development.

Jun Wan1, Tomohiro Masuda, Laszlo Hackler

  • 1Wilmer Institute, Johns Hopkins University School of Medicine, Baltimore, MD 21287, USA.

Nucleic Acids Research
|July 5, 2011
PubMed
Summary

Alternative splicing (AS) dynamics in mouse retina development reveal over 7000 dynamically spliced exons, with early development showing the most changes. Retina-enriched genes exhibit more dynamic splicing, highlighting its role in development and homeostasis.

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Quantitative Analysis of Alternative Pre-mRNA Splicing in Mouse Brain Sections Using RNA In Situ Hybridization Assay

Published on: August 26, 2018

Area of Science:

  • Molecular Biology
  • Developmental Biology
  • Genomics

Background:

  • Alternative pre-mRNA processing, particularly alternative splicing (AS), is crucial for generating protein diversity and diverse biological functions.
  • Prior research on AS primarily examined spatial variations in protein isoforms across tissues, with less focus on temporal dynamics.
  • Understanding AS during development is key to deciphering complex biological processes and gene regulation.

Purpose of the Study:

  • To investigate the dynamic changes in alternative splicing (AS) usage over time during murine retina development.
  • To identify genes and exons with significant temporal splicing variations.
  • To explore the relationship between AS patterns, gene function, and retina-specific gene expression during development.

Main Methods:

  • Analysis of temporal transcriptomic data from murine retina development.
  • Identification and quantification of alternative splicing events across different developmental time points.
  • Bioinformatic analysis of splicing patterns, gene ontology enrichment, and sequence motif identification.
  • Correlation analysis between regulatory element occurrence and RNA-binding protein expression.

Main Results:

  • Over 7000 exons exhibited dynamic splicing changes during murine retina development, with a higher frequency of differential splicing events in early development.
  • Symmetric trends were observed in the splicing patterns of exclusive and inclusive exons, with genes showing similar splicing patterns often sharing biological functions.
  • Retina-enriched genes, particularly those expressed in the adult stage, displayed more dynamically spliced exons compared to other genes.
  • Candidate cis-regulatory elements for retinal AS were identified, and their predicted occurrence correlated strongly with the expression levels of known RNA-binding proteins.

Conclusions:

  • Alternative splicing is a highly dynamic process during murine retina development, significantly contributing to gene regulation and protein diversity.
  • Dynamic AS in retina-enriched genes suggests a critical role in maintaining retinal homeostasis and orchestrating developmental processes.
  • The identified cis-regulatory elements and their correlation with RNA-binding proteins provide insights into the regulatory mechanisms governing retinal AS.