FlyBase

In the biosciences, a database is a curated repository of raw data containing annotations, further analysis, and links to other databases. Examples of databases are the SWISSPROT database for annotated protein sequences or the FlyBase database of genetic and molecular data for Drosophila melanogaster. 

PIR provides also some degree of crossreferencing to other biomolecu-lar databases by linking to the DDBJ/EMBL/GenBank nucleotide sequence databases, PDB, GDB, FlyBase, OMIM, SGD, and MGD. 

The ENZYME database (Bairoch, 1996) is also used to generate standardized description lines for enzyme entries and to allow information such as catalytic activity, cofactors, and relevant keywords to be taken from ENZYME and to be added automatically to TrEMBL entries. Additionally, specialized databases such as FlyBase (FlyBase Consortium, 1999) and MGD (Blake et al., 1999) are used to transfer information such as the correct gene nomenclature and cross references to these databases into TrEMBL entries. The automatic analysis and annotation of TrEMBL entries are redone and updated every TrEMBL release. 

FlyBase (1999) The FlyBase database of the Drosophila genome projects and community literature. Nucleic Acids Research 27, 85-88. 

The recent completion of the sequence of D. melanogaster genome (Myers et al., 2000) and its publication in FlyBase (http //flybase.bio.indiana.edu) has facilitated the molecular characterization of new genes. 

Two hundred and twenty-nine desatl ESTs have been described in Flybase, EMBL or GENBANK databases (May 2003) 221 ESTs have a complete 5 -end, allowing grouping into five different categories of transcripts which only differ in their first exon (Tables 9.1 and 9.2). As shown in Table 9.2, desaturase transcripts have been found with a low abundance in all the tissues tested, except in the head, where they represent a high proportion of the total ESTs (0.2%). The five types of transcripts are not equivalently represented, in particular categories 3 and 5 contain only one EST each. The other three categories of transcripts represent 12 to 73 percent of the ESTs. 

FlyBase http //www.fruitfly.org Drosophila sequence and genome... 

Eukaryotic polymerase II promoter server Exlnt database ExPASy, tools FlyBase GDB GenBank,... 

Seven elongase transcripts have been reported at cytological position 46, and only two for each elongase at position 55 (Table 4.5) (flybase.bio.indiana.edu). One CG30008 transcript and one CG17821 transcript were found in the testis, but we verified that none of... 

Drysdale, R. A., M. A. Crosby, W. Gelbart, K. Campbell, D. Emmert, B. Matthews, S. Russo, et al. 2005. FlyBase Genes and gene models. Nucleic Acids Res 33, Database Issue D390-5. 

The UniProt Archive (UniParc) provides a stable, comprehensive, nonredundant sequence collection by storing the complete body of publicly available protein sequence data. Although most protein sequence data are derived from the translation of DDBJ/EMBL/GenBank sequences, primary protein sequence data are also submitted directly to UniProt or derived from the PDB entries. The Archive also captures protein sequence data from other sources such as Ensemble, International Protein Index (IPI), NCBI-RefSeq, FlyBase, and WormBase. Each protein sequence is assigned to a unique UniParc identifier (UPI ) and represented only once in the Archive. In UniParc, the... 

NCBI RefSeq http //www.ncbi.nIm.nih.gov/RefSeq Curated NR sequences genomes, transcripts and proteins derived from GenBank, EBI, DDBJ and model organism databases (e.g. TIGR, MGI, SGD, FlyBase) with wide taxonomic diversity. 

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