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Pre-mRNA Processing: RNA Splicing

Pre-mRNA Processing: RNA Splicing

RNA Splicing

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...

RNA Splicing

RNA Splicing

Alternative RNA Splicing

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 Splicing

Alternative RNA Splicing

Chromatin Structure and RNA Splicing

Chromatin Structure and RNA Splicing

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Updated: May 5, 2026

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

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Published on: December 9, 2016

In silico to in vivo splicing analysis using splicing code models.

Matthew R Gazzara¹, Jorge Vaquero-Garcia², Kristen W Lynch³

¹Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.

Methods (San Diego, Calif.)

|December 11, 2013

Summary

This summary is machine-generated.

Researchers can now use computational splicing code models to analyze alternative splicing in genes like Bridging Integrator 1 (BIN1). This practical guide demonstrates how the AVISPA web tool predicts tissue-specific isoforms and regulatory elements, aiding disease research.

Keywords:

AVISPA Alternative splicing BIN1 Centronuclear myopathy (CNM)Myotonic dystrophy (DM)Splicing code

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Last Updated: May 5, 2026

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Area of Science:

Molecular Biology
Genetics
Bioinformatics

Background:

Alternative splicing is crucial for gene regulation, development, and disease.
Understanding exon splicing patterns and regulatory elements is key for researchers.
Computational models are advancing in silico splicing analysis.

Purpose of the Study:

To provide a practical guide for using computational splicing code models in research.
To demonstrate the application of the AVISPA web tool for analyzing alternative splicing.
To investigate the splicing regulation of Bridging Integrator 1 (BIN1) as a case study.

Main Methods:

Utilized the AVISPA web tool, based on splicing code models.
Analyzed the alternative splicing patterns of the BIN1 gene.
Experimentally validated predicted regulators of BIN1 alternative splicing.

Main Results:

AVISPA accurately predicted many tissue-dependent BIN1 isoforms.
The tool successfully identified known regulators of BIN1 splicing.
Novel regulatory hypotheses for BIN1 splicing were generated and validated.

Conclusions:

Computational splicing code models, like those in AVISPA, offer powerful tools for in silico analysis of alternative splicing.
AVISPA facilitates the prediction and validation of splicing regulators, advancing research into genes like BIN1.
This approach aids in understanding the role of alternative splicing in tissue-specific gene function and disease.