EST clone analysis of two coffee hybrids (Coffea arabica X Coffea canephora in Coffea canephora X Coffea congensis

Abstract

Expressed sequence tags (ESTs) are short (from 100 to 800 base pairs) 5' or 3' sequences that are acquired with single pass sequencing of cDNA molecules. They contain transcribed, but not necessarily translated regions of genes and often also vector elements. They represent a redundant set of expressed genes in a given sample and are used in gene expression studies, finding new genes, alternative splicing research etc. ESTs often represent primary tool of functional genomic of orphan crops. They are often clustered due to their redundancy. The largest EST collection named dbEST, it is maintaned by NCBI and contains more than 70 million sequences. In this database, we have searched for EST clones of two coffee hybrids, Coffea arabica X Coffea canephora and Coffea canephora X Coffea congensis, and used BLAST algorithm to find out which proteins they are encoding. We have also determined gene ontology of protein hits.