The translational termination signal database (TransTerm) now also includes initiation contexts | Zendy

Chris M. Brown | Zendy; Peter A. Stockwell | Zendy; Mark E. Dalphin | Zendy; Warren P. Tate | Zendy

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The translational termination signal database (TransTerm) now also includes initiation contexts

Author(s) -

Chris M. Brown,

Peter A. Stockwell,

Mark E. Dalphin,

Warren P. Tate

Publication year - 1994

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/22.17.3620

Subject(s) - codon usage bias , biology , start codon , stop codon , genetics , coding region , translation (biology) , sequence (biology) , database , computational biology , computer science , gene , base sequence , genome , messenger rna

The TransTerm database of termination codon contexts has been extended to include sense codon usage, and initiation codon contexts. The database was constructed from 23,721 coding sequences from 93 organisms. The database contains: a) the sequence around the termination codon (-10, +10); b) the sequence around the initiation codon (-20, +10); c) the length, 'G+C%' of the third position of codons (GC3), the 'codon adaptation index' (CAI) and the 'effective number of codons' statistic (Nc); d) summary tables for each organism including total codon usage, stop codon and tetranucleotide stop-signal usage, and matrices tallying base frequencies at each position around the initiation and termination codons. The data are arranged to facilitate investigation of the relationships between the three phases of protein synthesis. The database is available electronically from EMBL.

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