GeneSeqer@PlantGDB: gene structure prediction in plant genomes | Zendy

Shan D. Schlueter | Zendy

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GeneSeqer@PlantGDB: gene structure prediction in plant genomes

Author(s) -

Shan D. Schlueter

Publication year - 2003

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkg533

Subject(s) - biology , annotation , gene annotation , genome , computational biology , gene prediction , gene , genetics , alignment free sequence analysis , sequence alignment , genome project , peptide sequence

The GeneSeqer@PlantGDB Web server (http://www.plantgdb.org/cgi-bin/GeneSeqer.cgi) provides a gene structure prediction tool tailored for applications to plant genomic sequences. Predictions are based on spliced alignment with source-native ESTs and full-length cDNAs or non-native probes derived from putative homologous genes. The tool is illustrated with applications to refinement of current gene structure annotation and de novo annotation of draft genomic sequences. The service should facilitate expert annotation as a community effort by providing convenient access to all public plant sequences via the PlantGDB database, a simple four-step protocol for spliced alignment and visually appealing displays of the predicted gene structures in addition to detailed sequence alignments.

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