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Alternative RNA Splicing

Alternative 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...

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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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Related Experiment Video

Updated: Mar 7, 2026

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

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

Published on: December 9, 2016

Assisted transcriptome reconstruction and splicing orthology.

Samuel Blanquart¹, Jean-Stéphane Varré², Paul Guertin^3,4

¹Inria, Université de Lille, Lille, France.

|February 11, 2017

Summary

Predicting protein isoforms across species is challenging. This study defines splicing orthologs to accurately predict mouse protein isoforms from human transcripts, achieving over 62% accuracy.

Keywords:

Eukaryotes Splicing orthologs Transcriptome prediction

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Last Updated: Mar 7, 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

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

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Single Cell Multiplex Reverse Transcription Polymerase Chain Reaction After Patch-clamp

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Published on: June 20, 2018

Area of Science:

Genomics
Computational Biology
Bioinformatics

Background:

Transcriptome reconstruction is computationally intensive, with current RNA-seq methods identifying only 21% of expressed transcripts.
Predictive accuracy of cross-species transcriptome analysis using external species' transcripts remains unquantified.
Accurate identification of splicing orthologs (transcripts with identical splicing patterns) is crucial for evaluating cross-species prediction models.

Purpose of the Study:

To propose a rigorous definition for splicing orthologs.
To evaluate the predictive power of cross-species transcriptomic data for protein isoform identification.
To quantify the accuracy of using human transcripts to predict mouse protein isoforms.

Main Methods:

Developed a procedural definition of splicing orthologs based on conserved splicing sites and protein-level alignments.
Compared human and mouse transcripts from the curated Consensus Coding Sequence (CCDS) database.
Analyzed the evolution of splicing orthologs over a decade using timestamped CCDS releases.

Main Results:

Identified 11,122 splicing orthologs between 24,382 human and 17,909 mouse transcripts.
Demonstrated that human transcripts can predict over 62% of mouse protein isoforms.
Showed that predictions improve to 74% when limited to transcripts known eight years prior.

Conclusions:

Proposed a refined definition for spliced isoform orthologs to account for conserved alternative splicing variations.
Validated the accuracy of orthologous isoform predictions using the new definition.
Highlighted the potential of cross-species transcriptomic data for enhancing protein diversity prediction in eukaryotes.