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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

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 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

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...

Pre-mRNA Processing: RNA Splicing

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...

Exon Recombination

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...

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Related Experiment Video

Updated: Jul 5, 2026

Engineering Artificial Factors to Specifically Manipulate Alternative Splicing in Human Cells

Engineering Artificial Factors to Specifically Manipulate Alternative Splicing in Human Cells

Published on: April 26, 2017

AsiDesigner: exon-based siRNA design server considering alternative splicing.

Young-Kyu Park¹, Seong-Min Park, Young-Chul Choi

¹Medical Genomics Research Center, KRIBB, Daejeon 305-806, Korea.

Nucleic Acids Research

|May 16, 2008

Summary

This summary is machine-generated.

AsiDesigner is a novel web tool for designing small interfering RNA (siRNA) to silence specific mRNA isoforms in eukaryotes. This system effectively targets alternative splicing, aiding functional genomics and drug discovery research.

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Area of Science:

Molecular Biology
Bioinformatics
Genomics

Background:

RNA interference (RNAi) using small interfering RNA (siRNA) is crucial for gene silencing in research.
Eukaryotic gene expression complexity, due to alternative splicing, necessitates isoform-specific gene silencing for protein function studies.

Purpose of the Study:

To develop a web-based software system, AsiDesigner, for designing siRNAs that account for alternative splicing.
To enable simultaneous silencing of multiple mRNA isoforms from a single gene.

Main Methods:

Developed a novel algorithm to identify common target regions for designing siRNAs against specific or multiple mRNA isoforms.
Integrated siRNA design with features for scoring performance, off-target analysis (BLAST, FASTA), and secondary structure evaluation.
Created a web-based system, AsiDesigner, accessible at http://sysbio.kribb.re.kr/AsiDesigner/.

Main Results:

AsiDesigner provides capabilities for designing siRNAs that specifically target alternatively spliced mRNA isoforms.
The system allows for the simultaneous silencing of multiple mRNA targets.
Validated effectiveness of the developed algorithm and AsiDesigner through extensive gene silencing experiments.

Conclusions:

AsiDesigner is an effective tool for mRNA level gene silencing, addressing the challenge of alternative splicing in eukaryotes.
The software is expected to significantly contribute to functional genomics, drug discovery, and molecular biology research.