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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...
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...
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...
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...
Pre-mRNA Processing: RNA Splicing01:32

Pre-mRNA Processing: 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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Related Experiment Video

Updated: Jul 20, 2026

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

A phylogenetic generalized hidden Markov model for predicting alternatively spliced exons.

Jonathan E Allen1, Steven L Salzberg

  • 1Center for Bioinformatics and Computational Biology, University of Maryland Institute for Advanced Computer Studies, University of Maryland, College Park, MD 20742, USA. jeallen@umiacs.umd.edu

Algorithms for Molecular Biology : AMB
|August 29, 2006
PubMed
Summary

This study introduces ExAlt, a computational method for identifying alternatively spliced exons using genome sequences and cross-species conservation. ExAlt improves the accuracy of detecting rare transcripts, aiding in eukaryotic gene prediction.

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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Accurate identification of alternatively spliced exons is a significant challenge in eukaryotic gene prediction.
  • Rarely expressed transcripts due to alternative splicing can be missed in gene expression studies.
  • Non-expression based computational approaches are crucial for identifying such transcripts.

Purpose of the Study:

  • To develop and evaluate a non-expression based statistical method for annotating alternatively spliced exons.
  • To assess the utility of cross-species sequence conservation in improving alternative splicing predictions.
  • To implement the method in a software program, ExAlt, for application to genomic data.

Main Methods:

  • A novel non-expression based statistical method was developed.
  • The method utilizes a single genome sequence and evidence of cross-species sequence conservation.
  • The computational method was implemented in a program named ExAlt.

Main Results:

  • ExAlt successfully identified the structure of most alternatively spliced exons in the analyzed dataset.
  • Cross-species sequence conservation was demonstrated to enhance the precision of alternative splicing predictions.
  • Prediction accuracy was analyzed for Drosophila melanogaster.

Conclusions:

  • The ExAlt software package effectively identifies alternatively spliced exons.
  • Cross-species conservation is a valuable feature for improving prediction accuracy.
  • ExAlt is available for use on Drosophila genomes to discover novel instances of alternative splicing.