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Related Concept Videos

Cis-regulatory Sequences02:02

Cis-regulatory Sequences

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Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
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Transcriptional regulators bind to specific cis-regulatory sequences in the DNA to regulate gene transcription. These cis-regulatory sequences are very short, usually less than ten nucleotide pairs in length. The short length means that there is a high probability of the exact same sequence randomly occurring throughout the genome.  Since regulators can also bind to groups of similar sequences, this further increases the chances of random binding. Transcriptional regulators form...
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Gene transcription is regulated by the synergistic action of several proteins that form a complex at a gene regulatory site. This is observed in eukaryotes, where the regulation of gene expression is a complex process. Regulatory proteins in eukaryotes can broadly be classified into two types – regulators that bind directly to specific DNA sequences and co-regulators that associate with regulatory proteins but cannot directly bind to the DNA. These co-regulators are further divided into...
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Related Experiment Video

Updated: Mar 21, 2026

HOX Loci Focused CRISPR/sgRNA Library Screening Identifying Critical CTCF Boundaries
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Hunting for Cis-Regulatory Elements in Proteins.

Toby J Gibson1, Manjeet Kumar1

  • 1Structural and Computational Biology Unit, European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany.

Cell Systems
|May 3, 2016
PubMed
Summary

A new bioinformatics tool identifies intrinsically disordered protein regions that regulate gene expression. This discovery enables more thorough investigations into these crucial protein modules.

Area of Science:

  • Bioinformatics
  • Molecular Biology
  • Genetics

Background:

  • Intrinsically disordered proteins (IDPs) play critical roles in cellular regulation.
  • Identifying functional elements within IDPs remains a significant challenge.
  • Disordered protein control elements are essential for gene expression regulation.

Purpose of the Study:

  • To develop a novel bioinformatics tool for predicting cis-acting, natively disordered protein control elements.
  • To facilitate systematic studies of these important regulatory protein modules.

Main Methods:

  • Development of a predictive algorithm for intrinsically disordered protein regions.
  • Application of the tool to identify cis-acting regulatory elements.
  • Bioinformatic analysis of predicted protein modules.

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Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes
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Main Results:

  • A new bioinformatics tool successfully predicts natively disordered protein control elements.
  • The tool identifies elements that function in cis, directly influencing gene expression.
  • This opens avenues for systematic investigation of these functional modules.

Conclusions:

  • The developed bioinformatics tool advances the study of intrinsically disordered proteins.
  • It provides a method for identifying novel regulatory elements.
  • Enables deeper understanding of protein function in gene regulation.