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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...
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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Frequency and Distribution of Crossovers in Caenorhabditis elegans Meiosis by SNP Genotyping using Real-time PCR
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A global analysis of C. elegans trans-splicing.

Mary Ann Allen1, LaDeana W Hillier, Robert H Waterston

  • 1Department of Molecular, Cellular, and Developmental Biology, University of Colorado at Boulder, Colorado 80309, USA.

Genome Research
|December 24, 2010
PubMed
Summary

Trans-splicing in C. elegans uses SL1 or SL2 RNAs for gene expression. Most genes utilize only one type, with SL2 aiding operon gene separation and SL1 indicating hybrid operons.

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Last Updated: Jun 5, 2026

Frequency and Distribution of Crossovers in Caenorhabditis elegans Meiosis by SNP Genotyping using Real-time PCR
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Frequency and Distribution of Crossovers in Caenorhabditis elegans Meiosis by SNP Genotyping using Real-time PCR

Published on: July 11, 2025

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Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project
10:19

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Published on: April 8, 2017

Area of Science:

  • Molecular Biology
  • Genomics
  • RNA Biology

Background:

  • Trans-splicing, the joining of separate RNA molecules, is crucial for gene expression in many organisms.
  • In C. elegans, trans-splicing involves short leader RNAs (SL1 or SL2) added to pre-mRNAs.
  • Understanding trans-splicing patterns is key to deciphering gene regulation and operon organization.

Purpose of the Study:

  • To analyze trans-splicing patterns in the C. elegans transcriptome using RNA-sequencing data.
  • To investigate the relationship between trans-splicing mechanisms (SL1 vs. SL2) and gene organization, particularly operons.
  • To determine the prevalence of operons and hybrid operons in the C. elegans genome.

Main Methods:

  • Utilized RNA-sequencing data from the modENCODE project for comprehensive transcriptome analysis.
  • Quantified the usage of SL1 and SL2 trans-splicing across C. elegans genes.
  • Correlated trans-splicing patterns with gene location, intercistronic distances, and operon structures.

Main Results:

  • Approximately 70% of C. elegans genes undergo trans-splicing.
  • Most trans-spliced genes exclusively use either SL1 or SL2, suggesting distinct regulatory mechanisms.
  • SL2 trans-splicing is prevalent in operons, with shorter intercistronic distances favoring SL2 usage.
  • SL1 trans-splicing in downstream operon genes suggests the presence of internal promoters, forming "hybrid" operons.
  • Over 17% of C. elegans genes are organized into operons.

Conclusions:

  • Trans-splicing in C. elegans is a widespread and mechanistically diverse process.
  • SL1 and SL2 trans-splicing play distinct roles in gene regulation and operon processing.
  • The study reveals significant insights into C. elegans genome organization, operon structure, and the functional significance of trans-splicing.