Identifying synonymous regulatory elements in vertebrate genomes
What you can do:
Scan vertebrate genomes for evolutionary conserved modules of transcription factor binding sites.
Highlights:
- This Web server scans vertebrate genomes for evolutionary conserved modules of cis-regulatory elements in a predefined configuration.
- SynoR identifies synonymous regulatory elements (SREs) in vertebrate genomes and performs de novo identification of SREs utilizing known patterns of TFBS in active regulatory elements (REs) as seeds for genome scans.
- Layers of multiple-species conservation allow the use of differential phylogenetic sequence conservation filters in search of SREs and the results are displayed such as to provide an extensive annotation of the genes containing the detected REs.
- Gene Ontology categories are utilized to further functionally classify the identified genes, and integrated GNF Expression Atlas 2 data allow the cataloging of tissue-specificities of the predicted SREs.
Keywords:
- transcription factor binding site prediction tool
- transcription factor binding site analysis tool
- DNA-binding sites prediction tool
- cis-elements prediction tool
- cis-regulatory elements prediction tool
- DNA sequence analysis tool
- promoter analysis tool
- promoter elements prediction tool
- combinational cis-regulatory elements
- vertebrate genomes
- vertebrate gene regulation
- synonymous regulatory elements prediction tool
- transcription factors
- response elements
- cis-elements
Literature & Tutorials:
This record last updated: 11-18-2005