|EST sequences and their annotation (amino acid sequence and results of homology search)|
Sequences of cDNA clones of Dictyostelium discoideum and their annotations (amino acid sequence, homology search results (with target DBs: dicty EST-DB, DNA-DB and protein-DB)). Links to the Atlas database (http://dictycdb.biol.tsukuba.ac.jp/~tools/bin/ISH/index.html), which is the database of images depicting localization of clones in Dictyostelium discoideum, the National BioResource Project (http://www.nbrp.jp/) and the dictyBase (http://dictybase.org/) are provided. Link to the table of contigs containing EST sequences is also provided. For each clone, the following four categories are established: 5' EST sequence, 3' EST sequence, 5' EST-3'EST-ligated sequence and full-length cDNA sequence. If both 5' EST sequence and 3' EST sequence are available, the treatment to ligate the 5' EST sequence to the 3' EST sequence is peformed to generate a sequence connecting the two sequences with ten pieces of hyphen. If an overlapped region exists between the two sequences, the sequence obtained by overlapping is considered as a full-length sequence. For some clones that do not allow overlapping, the full-length is obtained by sequencing the gap region. F, Z, P and E are added to the end of the Clone ID to identify 5' EST sequence, 3' EST sequence, 5' EST-3'EST-ligated sequence and full-length cDNA sequence. For each clone, these sequences are stored on a single line. Among these sequences, one sequence is selected as the representative sequence by prioritizing full-length cDNA sequence, 5' EST-3'EST-ligated sequence, 5' EST sequence and 3' EST sequence in this order, and the BLAST-based homology search is performed. Search is performed by the blastn search against clone sequences of dicty_cDB, the DNA sequence in public database, and blastx search against the protein sequence in public database, and then the top 10 hit information is stored. CSV format text file.
Clones obtained from 11 different cDNA libraries originating from five developmental stages were sequenced.