RuphiBase the Manila Clam (Ruditapes philippinarum) transcriptome database

RuphiBase reports results the first transcriptome sequencing and annotation of the bivalve mollusc Ruditapes philippinarum (Manila clam). RuphiBase entries are centred on contig sequence and annotation. The database is searchable by contig ID, key words and BLAST.
Starting from 463,424 total sequences including:

a total of 191,624 sequences were assembled into 32,606 contigs representing the R. philippinarum transcriptome.

The 30% of contigs (9,747) resulted to be similar to a known protein or transcript.
About 40% of contigs similar to known proteins were associated to functional information (GO terms), corresponding to the 21% of the whole transcriptome.
For each contig, an entry reports the following data sections:

Example contig: http://compgen.bio.unipd.it/ruphibase/contig/ruditapes_c2/
The database is searchable by keywords or BLAST against contig sequences; massive and customized data retrival is allowed by the query system.

RuphiBase is a project developed by the Computational Genomics and the Comparative Genomics Laboratories, University of Padova in the frame of a collaboration involving: