Related Experiment Video
Updated: Jul 5, 2026
08:12
A Web-Based Workflow for Selecting Gene- and Tissue-Specific Enhancers
Published on: July 18, 2025
Using CorePromoter to find human core promoters
1Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA.
Current Protocols in Bioinformatics
|April 23, 2008
Summary
CorePromoter is a user-friendly program for identifying transcriptional start sites and core promoter regions in human genes. It can be accessed online or downloaded for local use, aiding in gene-finding analysis.
Area of Science:
- Genomics
- Bioinformatics
- Molecular Biology
Background:
- Accurate identification of transcriptional start sites (TSS) and core promoter regions is crucial for understanding gene regulation.
- Existing methods may require complex computational resources or lack accessibility for broad use.
Purpose of the Study:
- To introduce the CorePromoter program for the identification of TSS and core promoter regions.
- To demonstrate the utility and ease of use of CorePromoter for analyzing human gene sequences.
Main Methods:
- Utilizing the CorePromoter program with 5'-upstream genomic DNA sequences of human genes.
- Accessing the program via a web interface or local download.
- Applying the program's methodology to a sample gene-finding problem.
Main Results:
- CorePromoter effectively identifies transcriptional start sites (TSS) and core promoter regions.
- The program is simple to operate, accessible via web or local installation.
- Successful integration with other gene-finding programs for comprehensive analysis.
Conclusions:
- CorePromoter is a valuable and accessible tool for researchers studying human gene promoters.
- Its straightforward methodology facilitates the analysis of genomic DNA sequences for gene identification.
- The program enhances the capability of gene-finding workflows.
Related Concept Videos
02:40The Eukaryotic Promoter Region
The eukaryotic promoter region is a segment of DNA located upstream of a gene. It contains an RNA polymerase binding site, a transcription start site, and several cis-regulatory sequences. The proximal promoter region is located in the vicinity of the gene and has cis-regulatory sequences and the core promoter. The core promoter is the binding site for RNA polymerase and is usually located between -35 and +35 nucleotides from the transcription start site. The distal promoter regions are...
02:40The Eukaryotic Promoter Region
The eukaryotic promoter region is a segment of DNA located upstream of a gene. It contains an RNA polymerase binding site, a transcription start site, and several cis-regulatory sequences. The proximal promoter region is located in the vicinity of the gene and has cis-regulatory sequences and the core promoter. The core promoter is the binding site for RNA polymerase and is usually located between -35 and +35 nucleotides from the transcription start site. The distal promoter regions are...
02:42Eukaryotic Transcription Activators
Transcription activators are proteins that promote the transcription of genes from DNA to RNA. In most cases, these proteins contain two separate domains ‒ a domain that binds to DNA and a domain for activating transcription; however, in some cases, a single domain is responsible for both binding and activation of transcription, as seen in the glucocorticoid receptor and MyoD.
The binding domains are capable of recognizing and interacting with regulatory sequences on the DNA. These domains are...
The binding domains are capable of recognizing and interacting with regulatory sequences on the DNA. These domains are...
01:58Prokaryotic Transcriptional Activators and Repressors
The organization of prokaryotic genes in their genome is notably different from that of eukaryotes. Prokaryotic genes are organized, such that the genes for proteins involved in the same biochemical process or function are located together in groups. This group of genes, along with their regulatory elements, are collectively known as an operon. The functional genes in an operon are transcribed together to give a single strand of mRNA known as polycistronic mRNA.
Transcription of prokaryotic...
Transcription of prokaryotic...
01:58Prokaryotic Transcriptional Activators and Repressors
The organization of prokaryotic genes in their genome is notably different from that of eukaryotes. Prokaryotic genes are organized, such that the genes for proteins involved in the same biochemical process or function are located together in groups. This group of genes, along with their regulatory elements, are collectively known as an operon. The functional genes in an operon are transcribed together to give a single strand of mRNA known as polycistronic mRNA.
Transcription of prokaryotic...
Transcription of prokaryotic...
02:04Co-activators and Co-repressors
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...