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dbLRC-KIR, A NEW SPECIALISED DATABASE FOR GENES OF THE LEUCOCYTE RECEPTOR COMPLEX.
Wolfgang Helmberg PhD 1, Michael Feolo 2 and Raymond Dunivin 2. 1 UBT, Medical University Graz, Graz, Austria and 2 NCBI, NIH, Bethesda, MD, USA .
The NCBI has established a new specialised database focusing on the Leukocyte Receptor Complex (LRC) on chromosome 19. This new database provides a set of non-redundant sequences of KIR genes and LILR genes.
Sequences are presented in a multi locus alignment, both for KIR and LILR genes. Alignments are based on genomic full length sequences submitted to DDBJ/Embl/GenBank. Multi locus alignments of KIR genes span the entire set of exons and introns. All LILR genes are aligned in their extra cellular domains. This alignment continues for the LIRB genes into the intracellular domains. Complete LIRA sequences can be obtained from individual gene alignments.
Updates of alignments are done on a monthly basis. If the gene of a new sequence is not indicated, it is presumed to represent the gene with the highest exon sequence similarity.
Several tools are available to utilise the sequence database:
An interactive alignment viewer which allows displaying individual exons/introns, a user-defined list of alleles, groups of differences between alleles selected, and nucleotide or protein displays. A download tool supporting various formats. An interactive SSO/SSP tool to support design of typing reagents. An interactive Sequencing Based Tying analysis tool that allows interpretation of haploid and diploid sequences.
The website is online since end of April 2005. The URL is www.ncbi.nlm.nih.gov/lrc.