Genome-wide analysis and identification of genes related to expansin gene family in indica rice

In this study, we carried out genome-wide analyses to explore expansin gene family in the genome of indica rice. Reference nucleotides were chosen as query sequences for searches in the indica rice genome database. Clones having genomic sequences similar to expansin were taken and converted to amino...

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Bibliographic Details
Published inInternational journal of bioinformatics research and applications Vol. 7; no. 2; p. 162
Main Authors Hemalatha, N, Rajesh, M K, Narayanan, N K
Format Journal Article
LanguageEnglish
Published Switzerland 2011
Subjects
Genes, Plant
Genome, Plant
Genomics - methods
Multigene Family
Oryza - genetics
Phylogeny
Plant Proteins - genetics
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Summary:In this study, we carried out genome-wide analyses to explore expansin gene family in the genome of indica rice. Reference nucleotides were chosen as query sequences for searches in the indica rice genome database. Clones having genomic sequences similar to expansin were taken and converted to amino acid sequences. Putative sequences were subjected to PROSITE and Pfam databases, and 21 signature-sequences-related expansin gene family was obtained. The presence of transmembrane domains was also predicted for all 21 expansin proteins. A phylogenetic tree was generated from the alignments of the proteins sequences to examine the phylogenetic relationship of indica rice expansin proteins.
ISSN:1744-5485
DOI:10.1504/IJBRA.2011.040094