A novel feature of microsatellites in plants: A distribution gradient along the direction of transcription

Shigeo Fujimori, Takanori Washio, Kenichi Higo, Yasuhiro Ohtomo, Kazuo Murakami, Kenichi Matsubara, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki, Shoshi Kikuchi, Masaru Tomita

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Abstract

A computer-based analysis was conducted to assess the characteristics of microsatellites in transcribed regions of rice and Arabidopsis. In addition, two mammals were simultaneously analyzed for a comparative analysis. Our analyses confirmed a novel plant-specific feature in which there is a gradient in microsatellite density along the direction of transcription. It was also confirmed that pyrimidine-rich microsatellites are found intensively near the transcription start sites, specifically in the two plants, but not in the mammals. Our results suggest that microsatellites located at high frequency in the 5′-flanking regions of plant genes can potentially act as factors in regulating gene expression.

Original languageEnglish
Pages (from-to)17-22
Number of pages6
JournalFEBS Letters
Volume554
Issue number1-2
DOIs
Publication statusPublished - 2003 Nov 6

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Keywords

  • Full-length cDNA
  • Microsatellite
  • Tandem repeat
  • Transcribed region
  • Transcriptional regulation

ASJC Scopus subject areas

  • Biophysics
  • Structural Biology
  • Biochemistry
  • Molecular Biology
  • Genetics
  • Cell Biology

Cite this

Fujimori, S., Washio, T., Higo, K., Ohtomo, Y., Murakami, K., Matsubara, K., Kawai, J., Carninci, P., Hayashizaki, Y., Kikuchi, S., & Tomita, M. (2003). A novel feature of microsatellites in plants: A distribution gradient along the direction of transcription. FEBS Letters, 554(1-2), 17-22. https://doi.org/10.1016/S0014-5793(03)01041-X