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Related Concept Videos

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...
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...
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...
Chromatin Structure and RNA Splicing02:41

Chromatin Structure and RNA Splicing

In eukaryotic cells, nascent mRNA transcripts need to undergo many post-transcriptional modifications to reach the cell cytoplasm and translate into functional proteins. For a long time, transcription and pre-mRNA processing were considered two independent events that occur sequentially in the cell. However, it has now been well established that transcription and pre-mRNA processing are two simultaneous processes that are precisely regulated inside the cell.
The chromatin structure, especially...

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

Published on: December 9, 2016

TrueSight: a new algorithm for splice junction detection using RNA-seq.

Yang Li1, Hongmei Li-Byarlay, Paul Burns

  • 1Department of Bioengineering, Institute for Genomic Biology, Department of Entomology, University of Illinois at Urbana-Champaign, IL 61801, USA.

Nucleic Acids Research
|December 21, 2012
PubMed
Summary
This summary is machine-generated.

TrueSight accurately identifies splice junctions in RNA sequencing data by combining read mapping quality and coding potential. This method improves alternative splicing analysis and discovered novel splice forms in honey bees.

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A Reporter Based Cellular Assay for Monitoring Splicing Efficiency
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A Reporter Based Cellular Assay for Monitoring Splicing Efficiency

Published on: September 15, 2021

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Last Updated: May 15, 2026

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
09:58

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

Published on: December 9, 2016

A Reporter Based Cellular Assay for Monitoring Splicing Efficiency
08:53

A Reporter Based Cellular Assay for Monitoring Splicing Efficiency

Published on: September 15, 2021

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • RNA sequencing (RNA-seq) is vital for transcriptome profiling using next-generation sequencing (NGS).
  • Accurate mapping of short NGS reads to splice junctions (SJs) is challenging but crucial for alternative splicing (AS) analysis and isoform reconstruction.

Purpose of the Study:

  • To introduce TrueSight, a novel method for precise SJ identification.
  • To integrate RNA-seq read mapping quality and genomic coding potential into a unified model for improved AS analysis.

Main Methods:

  • Developed TrueSight, a machine-learning approach combining read mapping quality and coding potential.
  • Evaluated TrueSight using simulations and real RNA-seq data, including honey bee transcriptomes.

Main Results:

  • TrueSight demonstrated higher sensitivity and specificity compared to existing methods.
  • Identified novel splice forms in honey bee RNA-seq data.
  • Revealed that 60.3% of honey bee multi-exon genes undergo alternative splicing.

Conclusions:

  • TrueSight offers a powerful tool for accurate SJ identification and AS analysis.
  • The method enhances gene model accuracy and facilitates comprehensive study of alternative splicing biology.