CR-EST: a resource for crop ESTs.
The crop expressed sequence tag 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. CR-EST currently holds more than 200,000 sequences derived from 41 cDNA libraries of four species: barley, wheat, pea and potato. The barley section comprises approximately one-third of all publicly available ESTs. CR-EST deploys an automatic EST preparation pipeline that includes the identification of chimeric clones in order to transparently display the data quality. Sequences are clustered in species-specific projects to currently generate a non-redundant set of approximately 22,600 consensus sequences and approximately 17,200 singletons, which form the basis of the provided set of unigenes. A web application allows the user to compute BLAST alignments of query sequences against the CR-EST database, query data from Gene Ontology and metabolic pathway annotations and query sequence similarities from stored BLAST results. CR-EST also features interactive JAVA-based tools, allowing the visualization of open reading frames and the explorative analysis of Gene Ontology mappings applied to ESTs.
Künne
C
C
Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstrasse 3, 06466 Gatersleben, Germany.
Lange
M
M
Funke
T
T
Miehe
H
H
Thiel
T
T
Grosse
I
I
Scholz
U
U
D018556:Crops, Agricultural / Q000235:genetics*; D003628:Database Management Systems; D030561:Databases, Nucleic Acid; D020224:Expressed Sequence Tags / Q000737:chemistry*; D017343:Genes, Plant; D001467:Hordeum / Q000235:genetics; D018532:Pisum sativum / Q000235:genetics; D017422:Sequence Analysis, DNA; D011198:Solanum tuberosum / Q000235:genetics; D014908:Triticum / Q000235:genetics; D014584:User-Computer Interface