Bioinformatics Links Directory : Plants

In this section are links specific to plant resources including those for Maize and Arabidopsis.

GeMprospector - (Found June 24, 2008 )

GeMprospector is designed to find cross-species genetic marker candidates in legumes and grasses. GeMprospector automates PCR primer design based on multiple sequence alignments of submitted ESTs and their homologues in sequence databases from legumes or grasses.
http://cgi-www.daimi.au.dk/cgi-chili/GeMprospector/main

EUGENE'HOM - (Found June 24, 2008 )

EUGENE'HOM is a gene prediction software for eukaryotic organisms based on comparative analysis. The data is currently tuned for plant sequences of up to 400kb.
http://genopole.toulouse.inra.fr/bioinfo/eugene/EuGeneHom/cgi-bin/EuGeneHom.pl

DRTF - (Found June 24, 2008 )

Database of Rice Transcription Factor (DRTF) is a collection of known and predicted transcription factors from japonica and indica rice genomes.
http://drtf.cbi.pku.edu.cn/

DATF - (Found June 24, 2008 )

The Database of Arabidopsis Transcription Factors (DATF) contains information of more than 1800 known and predicted transcription factors for Arabidopsis.
http://datf.cbi.pku.edu.cn

AthaMap - (Found June 24, 2008 )

AthaMap is a genome-wide map of putative transcription factor binding sites in Arabidopsis thaliana
http://www.athamap.de/

Arabidopsis Ensembl - (Found June 24, 2008 )

Access to the Arabidopsis thaliana genome through the Ensembl user interface. There are two independent assemblies available, one from TIGR and one from MIPS. Includes the collection of NASC insertion mutants.
http://atensembl.arabidopsis.info/

YOGY - (Found June 24, 2008 )

Eukaryotic Orthology (YOGY) is a resource for retrieving orthologous proteins from nine eukaryotic organisms. Using a gene or protein identifier as a query, this database provides comprehensive, combined information on orthologs in other species using data from five independent resources: KOGs, Inparanoid, Homologene, OrthoMCL, and a table of curated orthologs between budding yeast and fission yeast. Associated Gene Ontology (GO) terms of orthologs can also be retrieved.
http://www.sanger.ac.uk/PostGenomics/S_pombe/YOGY/