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In Silico analysis of the lateral organ junction (LOJ) gene and promoter of Arabidopsis thaliana.
Saha, Dipnarayan; Prasad, Anand M; Sujatha, Thankeswaran P; Kumar, Vajinder; Jain, Pradeep K; Bhat, Sripad R; Srinivasan, Ramamurthy.
Afiliación
  • Saha D; National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, New Delhi, India. srinivasan53@gmail.com
In Silico Biol ; 7(1): 7-19, 2007.
Article en En | MEDLINE | ID: mdl-17688431
ABSTRACT
A T-DNA based promoter trapped mutant has led to the identification of a novel lateral organ junction specific promoter upstream of the pentatricopeptide repeat (PPR) protein coding gene LOJ in Arabidopsis thaliana by our laboratory. Various in silico based prediction tools are employed to characterize the upstream sequence of the LOJ gene. Out of numerous cis-elements detected in the LOJ promoter a few are considered important based on the expression pattern of the LOJ gene. These elements would provide a basis for designing experiments for more accurate promoter function annotation. A comparative search for conserved elements in the 5'-upstream region of a few genes involved in lateral organ development and meristem related expression reveals a few common relevant regulatory motifs. The coding region of the LOJ gene is intron-less and contains 19 PPR units. Based on in silico analysis, LOJ protein is predicted to be hydrophobic in nature and targeted to mitochondria. A partial 3D model of LOJ protein has been suggested using a homology-based modeling program.
Asunto(s)
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Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Arabidopsis / Biología Computacional / Proteínas de Arabidopsis Tipo de estudio: Prognostic_studies Idioma: En Revista: In Silico Biol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2007 Tipo del documento: Article País de afiliación: India
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Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Arabidopsis / Biología Computacional / Proteínas de Arabidopsis Tipo de estudio: Prognostic_studies Idioma: En Revista: In Silico Biol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2007 Tipo del documento: Article País de afiliación: India