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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...

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...

Single Nucleotide Polymorphisms-SNPs

Single Nucleotide Polymorphisms-SNPs

A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...

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...

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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Related Experiment Video

Updated: Jul 25, 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

GeneSplicer: a new computational method for splice site prediction.

M Pertea¹, X Lin, S L Salzberg

¹The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA.

Nucleic Acids Research

|February 27, 2001

Summary

GeneSplicer accurately detects splice sites in eukaryotic DNA, performing comparably to leading methods in both plants and humans. This flexible system offers efficient and reliable genomic analysis for researchers.

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Area of Science:

Genomics
Bioinformatics
Computational Biology

Background:

Accurate splice site detection is crucial for understanding gene structure and function in eukaryotes.
Existing splice site detection tools vary in accuracy and efficiency across different species.

Purpose of the Study:

To introduce GeneSplicer, a novel and flexible system for splice site detection in eukaryotic genomic DNA.
To evaluate GeneSplicer's performance against established splice site detection programs.

Main Methods:

GeneSplicer was developed as a flexible system for splice site detection.
The system was tested using genomic DNA from *Arabidopsis thaliana* and human.
Performance was benchmarked against six leading splice site detection programs: NetPlantGene, NetGene2, HSPL, NNSplice, GENIO, and SpliceView.

Main Results:

GeneSplicer demonstrated comparable accuracy to the best alternative splice site detection methods for both *Arabidopsis thaliana* and human DNA.
The system exhibited competitive computational efficiency.
Successful validation was achieved in two distinct eukaryotic reference organisms.

Conclusions:

GeneSplicer is a highly accurate and computationally efficient tool for splice site detection in diverse eukaryotic genomes.
Its flexibility and performance make it a valuable addition to the bioinformatics toolkit for genomic analysis.