PROTOGENE: turning amino acid alignments into bona fide CDS nucleotide alignments.

Détails

ID Serval
serval:BIB_F1F82A40F52D
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
PROTOGENE: turning amino acid alignments into bona fide CDS nucleotide alignments.
Périodique
Nucleic Acids Research
Auteur(s)
Moretti S., Reinier F., Poirot O., Armougom F., Audic S., Keduas V., Notredame C.
ISSN
1362-4962[electronic]
Statut éditorial
Publié
Date de publication
07/2006
Volume
34
Numéro
Web Server issue
Pages
W600-W603
Langue
anglais
Notes
Publication types: Journal Article
Résumé
We describe Protogene, a server that can turn a protein multiple sequence alignment into the equivalent alignment of the original gene coding DNA. Protogene relies on a pipeline where every initial protein sequence is BLASTed against RefSeq or NR. The annotation associated with potential matches is used to identify the gene sequence. This gene sequence is then aligned with the query protein using Exonerate in order to extract a coding nucleotide sequence matching the original protein. Protogene can handle protein fragments and will return every CDS coding for a given protein, even if they occur in different genomes. Protogene is available from http://www.tcoffee.org/.
Mots-clé
Base Sequence, DNA/chemistry, Genes, Internet, RNA, Messenger/chemistry, Sequence Alignment/methods, Sequence Analysis, Protein, Software, User-Computer Interface
Pubmed
Open Access
Oui
Création de la notice
19/11/2007 11:53
Dernière modification de la notice
09/05/2019 3:20
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