![]() Preformatted databases must be downloaded in binary mode, downloading through the update_ script is recommeded. Sequences in FASTA format can be generated easily from the preformatted databases using the blastdbcmd utility when needed Entries are EXCLUDED from the nt database.ĭatabases with collection fungal or eukaryotic Internal Transcribed Spacer sequences.ĭatabase with large submit rRNA sequences for prokaryotes and eukaryotes.Ī database with sequences small from fungi and eukaryotesĪ non-sequence database file containing taxonomic information for sequences in the preformatted databases providing common and scientific names for each entry. Project-based TSA entries are NOT included. Sequences for the nucleotide components of PDB structure records.Ī database with earlier non-project based Transcriptome Shotgun Assembly (TSA) entries. Entries are EXCLUDED from the nt database. Nucleotide sequences from patents as supplied by USPTO to GenBank, or from EU/Japan Patent Agencies through EMBL/DDBJ. RefSeq genomic entries are also excluded. Sequences from bulk divisions, i.e., gss, sts, pat, est, htg, wgs, con, and environmental sequences are excluded. The nucleotide sequence database contains entries from traditional divisions of GenBank, EMBL and DDBJ. Its entries are EXCLUDED from the nr database. ![]() Protein sequences from large environmental sequencing projects, e.g., Sargasso Sea, Acid Mine Drainage. Protein sequences from the Trascriptome Shotgun Assembly. Protein sequences from the swiss-prot sequence database (last major update). Protein sequences from NCBI RefSeq project. Protein sequences from PDB structure records’ protein components. These entries are EXCLUDED from the nr database. Protein sequences from patents as supplied by USPTO. The landmark database includes complete proteomes from a few selected representative genomes spanning a wide taxonomic range, the main database used by the SmartBLAST services.Ĭondensed conserved domain database for use with deltablast protein searches.Ī collection of protein sequences with entries from GenPept, Swissprot, PDB, PRF, PIR and NCBI Reference Sequence (RefSeq) project.
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