SinEx DB: a database for single exon coding sequences in mammalian genomes

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dc.contributor.authorJorquera, Roddy
dc.contributor.authorOrtiz, Rodrigo
dc.contributor.authorOssandon, F.
dc.contributor.authorCardenas, Juan Pablo
dc.contributor.authorSepulveda, Rene
dc.contributor.authorGonzalez, Carolina
dc.contributor.authorHolmes, David S.
dc.date.accessioned2017-02-09T16:44:38Z
dc.date.available2017-02-09T16:44:38Z
dc.date.issued2016-06
dc.descriptionIndexación: Web of Science.es
dc.description.abstractEukaryotic genes are typically interrupted by intragenic, noncoding sequences termed introns. However, some genes lack introns in their coding sequence (CDS) and are generally known as 'single exon genes' (SEGs). In this work, a SEG is defined as a nuclear, protein-coding gene that lacks introns in its CDS. Whereas, many public databases of Eukaryotic multi-exon genes are available, there are only two specialized databases for SEGs. The present work addresses the need for a more extensive and diverse database by creating SinEx DB, a publicly available, searchable database of predicted SEGs from 10 completely sequenced mammalian genomes including human. SinEx DB houses the DNA and protein sequence information of these SEGs and includes their functional predictions (KOG) and the relative distribution of these functions within species. The information is stored in a relational database built with My SQL Server 5.1.33 and the complete dataset of SEG sequences and their functional predictions are available for downloading. SinEx DB can be interrogated by: (i) a browsable phylogenetic schema, (ii) carrying out BLAST searches to the in-house SinEx DB of SEGs and (iii) via an advanced search mode in which the database can be searched by key words and any combination of searches by species and predicted functions. SinEx DB provides a rich source of information for advancing our understanding of the evolution and function of SEGs.es
dc.description.urihttps://academic.oup.com/database/article-lookup/doi/10.1093/database/baw095
dc.identifier.citationDatabase (2016) Vol. 2016: article ID baw095es
dc.identifier.issn1758-0463
dc.identifier.otherhttps://doi.org/10.1093/database/baw095
dc.identifier.urihttp://repositorio.unab.cl/xmlui/handle/ria/2978
dc.language.isoenes
dc.publisherOXFORD UNIV PRESSes
dc.subjectINTRON-CONTAINING GENESes
dc.subjectRIBOSOMAL-PROTEINSes
dc.subjectEVOLUTIONes
dc.subjectEXPRESSIONes
dc.subjectPATTERNSes
dc.subjectDISEASESes
dc.subjectREGIONSes
dc.subjectRNASes
dc.titleSinEx DB: a database for single exon coding sequences in mammalian genomeses
dc.typeArtículoes
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