Nucleic Acids Research, 2004, Vol. 32, Database issue D489-D492
© 2004 Oxford University Press
AluGene: a database of Alu elements incorporated within protein-coding genes
Department of Zoology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Ramat Aviv 69978, Israel, 1 Department of Human Genetics and Molecular Medicine, Sackler Faculty of Medicine, Tel Aviv University, Ramat Aviv 69978, Israel and 2 Compugen, 72 Pinchas Rosen Street, Tel Aviv 69512, Israel
*To whom correspondence should be addressed. Tel: +972 3 6408646; Fax: +972 3 6409403; Email: tali{at}kimura.tau.ac.il
Present address:
Dan Graur, Department of Biology and Biochemistry, University of Houston, Houston, TX 77204-5501, USA
The authors wish it to be known that, in their opinion, the first three authors should be regarded as joint First Authors
Alu elements are short interspersed elements (SINEs) 
300 nucleotides in length. More than 1 million Alus are found in the human genome. Despite their being genetically functionless, recent findings suggest that Alu elements may have a broad evolutionary impact by affecting gene structures, protein sequences, splicing motifs and expression patterns. Because of these effects, compiling a genomic database of Alu sequences that reside within protein-coding genes seemed a useful enterprise. Presently, such data are limited since the structural and positional information on genes and Alu sequences are scattered throughout incompatible and unconnected databases. AluGene (http://Alugene.tau.ac.il/) provides easy access to a complete Alu map of the human genome, as well as Alu-associated information. The Alu elements are annotated with respect to coding region and exon/intron location. This design facilitates queries on Alu sequences, locations, as well as motifs and compositional properties via a one-stop search page.
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