TransTerm, the translational signal database, extended to include full coding sequences and untranslated regions.
TransTerm is a database of mRNA sequences and parameters useful for detecting translational control signals in general. TransTerm-98 has been expanded beyond previous years to include full coding sequences and UTRs, while retaining the original small contexts about the coding sequence start- and stop-codons. The database contains more than 130 000 non-redundant coding sequences with associated untranslated regions (UTRs) from over 450 species. This includes the complete genomes of 12 prokaryotic and one eukaryotic organism. Several coding sequence parameters are available: coding sequence length, Nc, GC3 and, when it is computable, Codon Adaptation Index (CAI). Codon usage tables and summaries of start- and stop-codon contexts are also included. TransTerm-98 has both a relational database form with a WWW interface and a flatfile format, also available by Internet browser. TransTerm is available at: http://biochem.otago.ac.nz:800/Transterm/homepage.h tml
Dalphin
M E
ME
Department of Biochemistry, University of Otago, PO Box 56, Dunedin, New Zealand. mdalphin@sanger.otago.ac.nz
Stockwell
P A
PA
Tate
W P
WP
Brown
C M
CM
D003062:Codon / Q000235:genetics; D016208:Databases, Factual; D005057:Eukaryotic Cells; D016680:Genome, Bacterial; D016679:Genome, Viral; D016247:Information Storage and Retrieval; D020407:Internet; D016366:Open Reading Frames / Q000235:genetics*; D015388:Organelles / Q000235:genetics; D011387:Prokaryotic Cells; D014176:Protein Biosynthesis / Q000235:genetics*; D012333:RNA, Messenger / Q000235:genetics*; D012045:Regulatory Sequences, Nucleic Acid; D020506:Untranslated Regions / Q000235:genetics*; D014584:User-Computer Interface
D003062:Codon; D012333:RNA, Messenger; D020506:Untranslated Regions