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Cis-regulatory Sequences

Cis-regulatory Sequences

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...

Cis-regulatory Sequences

Cis-regulatory Sequences

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...

Multi-species Conserved Sequences

Multi-species Conserved Sequences

Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved DNA...

Conserved Binding Sites

Conserved Binding Sites

Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally analyses the...

Conserved Binding Sites

Conserved Binding Sites

Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally analyses the...

Regulation of Expression at Multiple Steps

Regulation of Expression at Multiple Steps

The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the addition of a...

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Related Experiment Video

Updated: Jul 7, 2026

In vivo Application of the REMOTE-control System for the Manipulation of Endogenous Gene Expression

In vivo Application of the REMOTE-control System for the Manipulation of Endogenous Gene Expression

Published on: March 29, 2019

Ancora: a web resource for exploring highly conserved noncoding elements and their association with developmental

Pär G Engström¹, David Fredman, Boris Lenhard

¹Computational Biology Unit, Bergen Center for Computational Science, University of Bergen, Thormøhlensgate, N-5008 Bergen, Norway. par.engstrom@bccs.uib.no

|February 19, 2008

Summary

Discover Ancora, a web resource for exploring highly conserved noncoding elements (HCNEs) in metazoan genomes. It aids in identifying developmental regulatory genes and their associated regulatory elements and domains.

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Last Updated: Jul 7, 2026

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Area of Science:

Genomics
Developmental Biology
Bioinformatics

Background:

Metazoan genomes feature highly conserved noncoding elements (HCNEs).
These HCNEs are crucial for defining regulatory domains and spanning developmental regulatory genes.

Purpose of the Study:

To introduce Ancora, a novel web resource.
To provide tools for exploring the genomic organization of HCNEs across multiple species.

Main Methods:

Development of a web-based resource (Ancora).
Integration of a genome browser.
Introduction of HCNE density plots.

Main Results:

Ancora displays HCNE locations within various genomes.
Novel HCNE density plots are presented as a key feature.
The resource facilitates the discovery of developmental regulatory genes.

Conclusions:

Ancora is a valuable tool for understanding genome organization.
HCNE density plots offer a powerful method for identifying regulatory elements and domains.