CR-EST - Crop ESTs
NAR Molecular Biology Database Collection entry number 624
C. KÜnne, M. Lange, T. Funke, H. Miehe, T. Thiel, I. Grosse, and U. Scholz
Institute of Plant Genetics and Crop Plant Research (IPK) Corrensstrasse 3, 06466 Gatersleben, Germany
The crop EST database CR-EST (http://pgrc.ipk-gatersleben.de/cr-est/) is a publicly available online resource providing access to sequence, classification, clustering, and annotation data of crop EST projects at IPK Gatersleben, Germany. CR-EST currently holds more than 200,500 sequences derived from four species: barley, wheat, pea, and potato. The barley section comprises more than one third of all known public domain ESTs in EMBL sequence database. Sequences were organized into 41 cDNA libraries. We implemented an automatic EST preparation pipeline, including identification of chimeric clones, to meet requirements of transparently displaying data quality. Sequences have been clustered in species-specific projects to generate a non-redundant set of ~22,600 consensus sequences and ~17,200 singletons. This is the basis of the provided set of unigenes. A web application allows to BLAST against CR EST ESTs and to query and retrieve data from Gene Ontology and metabolic pathway annotations as well as sequence similarities from stored BLAST results. CR EST also features interactive JAVA-based tools, such as open reading frame visualization and explorative analysis of Gene Ontology mappings applied to ESTs.
Category: Plant databases
Subcategory: General plant databases
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