Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics

Nucleic Acids Res. 2003 Jul 15;31(14):4119-28. doi: 10.1093/nar/gkg438.

Abstract

We screened for new structural non-coding RNAs (ncRNAs) in the genome sequence of the yeast Saccharomyces cerevisiae using computational comparative analysis of genome sequences from five related species of Saccharomyces. The screen identified 92 candidate ncRNA genes. Thirteen showed discrete transcripts when assayed by northern blot. Of these, eight appear to be novel ncRNAs ranging in size from 268 to 775 nt, including three new H/ACA box small nucleolar RNAs.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Base Sequence
  • Blotting, Northern
  • Computational Biology / methods
  • Conserved Sequence / genetics
  • DNA, Complementary / chemistry
  • DNA, Complementary / genetics
  • DNA, Intergenic / genetics
  • Databases, Nucleic Acid
  • Genomics / methods*
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Open Reading Frames / genetics
  • RNA, Fungal / chemistry
  • RNA, Fungal / genetics
  • RNA, Fungal / metabolism
  • RNA, Untranslated / chemistry
  • RNA, Untranslated / genetics*
  • RNA, Untranslated / metabolism
  • Saccharomyces / genetics
  • Saccharomyces cerevisiae / genetics*
  • Sequence Alignment
  • Sequence Analysis, DNA
  • Sequence Homology, Nucleic Acid
  • Species Specificity
  • Transcription, Genetic

Substances

  • DNA, Complementary
  • DNA, Intergenic
  • RNA, Fungal
  • RNA, Untranslated

Associated data

  • GENBANK/AY253285
  • GENBANK/AY253286
  • GENBANK/AY253287
  • GENBANK/AY253288
  • GENBANK/AY253289