TransTerm, the translational signal database, extended to include full coding sequences and untranslated regions

Nucleic Acids Res. 1999 Jan 1;27(1):293-4. doi: 10.1093/nar/27.1.293.

Abstract

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

MeSH terms

  • Codon / genetics
  • Databases, Factual*
  • Eukaryotic Cells
  • Genome, Bacterial
  • Genome, Viral
  • Information Storage and Retrieval
  • Internet
  • Open Reading Frames / genetics*
  • Organelles / genetics
  • Prokaryotic Cells
  • Protein Biosynthesis / genetics*
  • RNA, Messenger / genetics*
  • Regulatory Sequences, Nucleic Acid
  • Untranslated Regions / genetics*
  • User-Computer Interface

Substances

  • Codon
  • RNA, Messenger
  • Untranslated Regions