SP-TrEMBL

The SWISS-PROT and TrEMBL ID lines differ in the first two parts of the ID line. The first part is the entry name "ANP NOTCO" in the case of the SWISS-PROT example and "Q12757" in the TrEMBL example. The entry name used in all SP-TrEMBL entries is always the same as the accession number of the entry. The entry name used in REM-TrEMBL is the Protein ID tagged to the corresponding CDS in the EMBL Nucleotide Sequence Database. To the right of the entry name you will find either "preliminary" (in the TrEMBL entry) or STANDARD (in the SWISS-PROT entry). The data class used in TrEMBL is always PRELIMINARY. That means that the data are thoroughly checked by a computer,... 

Fig. 6. Third level TrEMBLnew entry (after complete postprocessing) SP-TrEMBL.

The weekly updated SP-TrEMBL work release. REM-TrEMBL is not included in SP TR NRDB because REM-TrEMBL contains the entries that will not be included in SWISS-PROT, e.g., synthetic sequences and pseudogenes. 

PRODOM provides a clustering based on SWISS-PROT and SP-TrEMBL (Bairoch and Apweiler, 1999). PRODOM also contains a clustering for complete genomes in PRODOM-CG, where each genome has been separately processed with MKDOM2. 

Translated EMBL (TrEMBL) was created as a computer-annotated supplement to SWISS-PROT (Bleasby et al, 1994) having two main sections. SP-TrEMBL contains entries that are eventually incorporated into SWISS-PROT but not yet been manually annotated. REM-TrEMBL contains sequences that are not destined to be included in SWISS-PROT, including T-cell receptors, fragments of fewer than eight amino acids,... 

SPTR is distributed in three files sprot.dat.Z, trembl.dat.Z, and trembl new.dat.Z. These files are, as indicated by their Z extension, Unix compress format files, which, when decompressed, produce ASCII files in SWISS-PROT format. Three others files are also available (sprot.fas.Z, trembl.fas.Z, and trembl new.fas.Z), which are compressed fasta format sequence files that are useful for building the databases used by FASTA, BLAST, and other sequence similarity search programs. These files should not be used for other purposes, because all annotation is lost when using this format. The SPTR files are stored in the directory /pub/databases/sp tr nrdb on the EBI FTP server (ftp.ebi.ac.uk) and in the directory /databases/sp tr nrdb on the ExPASyFTP server (ftp. expasy.ch). 

Trembly L, Valenza F, Ribiero SP, et al. Injurious ventilatory strategies increase cytokines and c-fos m-RNA expression in an isolated rat lung model. J Clin Invest 1997 99 944-952. 

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