Identification of single exon genes and their encoded proteins in rice (Oryza sativa L.) genome: an in silico approach
by Ashutosh Kumar; Amita Barik; Megha Kumari; Ambarish S. Vidyarthi; Dev Mani Pandey
International Journal of Bioinformatics Research and Applications (IJBRA), Vol. 7, No. 4, 2011

Abstract: In this study, we predicted Single Exon Genes (SEGs) distributed in whole rice genome and their expressed proteins. Complete genome of rice was retrieved from TIGR. CDS annotation in the FEATURE (GenBank format) was used to predict SEGs sequences. Organelle gene sequences, pseudogenes, tRNA genes, rRNA genes and duplicated genes were eliminated through different bioinformatics tools. A sizeable number (8.1%) of SEGs in whole rice genome were detected. Predicted SEGs were further searched for their differential response under anoxia. Out of total detected SEGs, only 39.33% were anoxia responsive. Among the total detected anoxia-responsive SEG, only 23.48% encode the known proteins.

Online publication date: Sat, 24-Jan-2015

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