TISs-ST: a web server to evaluate polymorphic translation initiation sites and their reflections on the secretory targets

Autor(es)

Vicentini, Renato ; Menossi, Marcelo ^[2]

• Tipo de documento: Artigo Científico
• Fonte: BMC Bioinformatics; v. 8, p. 0-0, May 2007.
• Área do conhecimento: Ciências Biológicas - Genética
• Assunto(s): RNA mensageiro Bases de dados genéticas Sequência de bases Biossíntese de proteínas

Resumo

The nucleotide sequence flanking the translation initiation codon (start codon context) affects the translational efficiency of eukaryotic mRNAs, and may indicate the presence of an alternative translation initiation site (TIS) to produce proteins with different properties. Multitargeting may reflect the translational variability of these other protein forms. In this paper we present a web server that performs computations to investigate the usage of alternative translation initiation sites for the synthesis of new protein variants that might have different functions. An efficient web-based tool entitled TISs-ST (Translation Initiation Sites and Secretory Targets) evaluates putative translation initiation sites and indicates the prediction of a signal peptide of the protein encoded from this site. The TISs-ST web server is freely available to both academic and commercial users and can be accessed at http://ipe.cbmeg.unicamp.br/pub/TISs-ST. The program can be used to evaluate alternative translation initiation site consensus with user-specified sequences, based on their composition or on many position weight matrix models. TISs-ST provides analytical and visualization tools for evaluating the periodic frequency, the consensus pattern and the total information content of a sequence data set. A search option allows for the identification of signal peptides from predicted proteins using the PrediSi software. (AU)

• Processo FAPESP: 03/07244-0 - Transcriptoma da cana-de-açúcar
• Beneficiário: Glaucia Mendes Souza
• Linha de fomento: Auxílio à Pesquisa - Parceria para Inovação Tecnológica - PITE
• Processo FAPESP: 02/01167-1 - Desenvolvimento de marcadores moleculares a partir de ESTs de cana-de-acúcar para seleção de características economicamente importantes
• Beneficiário: Anete Pereira de Souza
• Linha de fomento: Auxílio à Pesquisa - Parceria para Inovação Tecnológica - PITE
• Processo FAPESP: 05/58104-0 - Localização subcelular de proteínas de cana-de-açúcar (Saccharum Spp.): caracterização in silico e avaliação funcional em larga escala
• Beneficiário: Marcelo Menossi Teixeira
• Linha de fomento: Auxílio à Pesquisa - Regular