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Genome SEGE: A database for 'intronless' genes in eukaryotic genomes

Authors
Publisher
BioMed Central
Publication Date
Source
PMC
Keywords
  • Database
Disciplines
  • Biology
  • Computer Science

Abstract

1471-2105-5-67.fm ral ss BioMed CentBMC Bioinformatics Open AcceDatabase Genome SEGE: A database for 'intronless' genes in eukaryotic genomes Meena Kishore Sakharkar and Pandjassarame Kangueane* Address: Nanyang Centre for Supercomputing and Visualization, School of Mechanical and Production Engineering, Nanyang Technological University, Singapore 639798 Email: Meena Kishore Sakharkar - [email protected]; Pandjassarame Kangueane* - [email protected] * Corresponding author Abstract Background: A number of completely sequenced eukaryotic genome data are available in the public domain. Eukaryotic genes are either 'intron containing' or 'intronless'. Eukaryotic 'intronless' genes are interesting datasets for comparative genomics and evolutionary studies. The SEGE database containing a collection of eukaryotic single exon genes is available. However, SEGE is derived using GenBank. The redundant, incomplete and heterogeneous qualities of GenBank data are a bottleneck for biological investigation in comparative genomics and evolutionary studies. Such studies often require representative gene sets from each genome and this is possible only by deriving specific datasets from completely sequenced genome data. Thus Genome SEGE, a database for 'intronless' genes in completely sequenced eukaryotic genomes, has been constructed. Availability: http://sege.ntu.edu.sg/wester/intronless Description: Eukaryotic 'intronless' genes are extracted from nine completely sequenced genomes (four of which are unicellular and five of which are multi-cellular). The complete dataset is available for download. Data subsets are also available for 'intronless' pseudo-genes. The database provides information on the distribution of 'intronless' genes in different genomes together with their length distributions in each genome. Additionally, the search tool provides pre-computed PROSITE motifs for each sequence in the database with appropriate hyperlinks to InterPro. A search facility is also ava

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