CSTminer: a web tool for the identification of coding and noncoding conserved sequence tags through cross-species genome comparison.
The identification and characterization of genome tracts that are highly conserved across species during evolution may contribute significantly to the functional annotation of whole-genome sequences. Indeed, such sequences are likely to correspond to known or unknown coding exons or regulatory motifs. Here, we present a web server implementing a previously developed algorithm that, by comparing user-submitted genome sequences, is able to identify statistically significant conserved blocks and assess their coding or noncoding nature through the measure of a coding potential score. The web tool, available at http://www.caspur.it/CSTminer/, is dynamically interconnected with the Ensembl genome resources and produces a graphical output showing a map of detected conserved sequences and annotated gene features.
Castrignanò
Tiziana
T
Consorzio Interuniversitario per le Applicazioni di Supercalcolo per Università e Ricerca, CASPUR, Rome, Italy.
Canali
Alessandro
A
Grillo
Giorgio
G
Liuni
Sabino
S
Mignone
Flavio
F
Pesole
Graziano
G
D000818:Animals; D003196:Computer Graphics; D017124:Conserved Sequence; D021901:DNA, Intergenic / Q000032:analysis*; D005091:Exons; D023281:Genomics; D006801:Humans; D020407:Internet; D051379:Mice; D012045:Regulatory Sequences, Nucleic Acid; D016324:Sequence Tagged Sites; D012984:Software; D014584:User-Computer Interface
D021901:DNA, Intergenic