The Basic Local Alignment Search Tool (BLAST) for comparing gene and protein sequences against others in public databases, now comes in several types including PSI-BLAST, PHI-BLAST, and BLAST 2 sequences. Specialized BLASTs are also available for human, microbial, malaria, and other genomes, as well as for vector contamination, immunoglobulins, and tentative human consensus sequences.

An algorithm is presented for the multiple alignment of sequences, either proteins or nucleic acids, that is both accurate and easy to use on microcomputers

TIGR Plant Transcript Assemblies represent clustered, assemblies of all transcripts for ~140 plant species and can be accessed here.

This site hosts a wide range of databases and software developed by UK CropNet, as well as hosting many other plant databases developed in the USA

Database and Web-browser data mining interface for Affymetrix GeneChip data. Users can query the database to retrieve the expression patterns of individual genes throughout chosen environmental conditions, growth stages, or organs.

The Salk Institute Genome Analysis Laboratory (SIGnAL) use high-throughput genome sequencing methods to identify the sites of insertion of Agrobacterium T-DNA in the Arabidopsis genome.

This server provides access to the program Genscan for predicting the locations and exon-intron structures of genes in genomic sequences from a variety of organisms

PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences

PLACE is a database of motifs found in plant cis-acting regulatory DNA elements, all from previously published reports. It covers vascular plants only.

This site provides a series of programs allowing the functional investigation of groups of genes, based on the Gene Ontology resource.

The Research Division 'Bioinformatics and Evolutionary Genomics' at the Department of Plant Systems Biology wants to become a center of excellence in both the field of gene and genome annotation and in the field of comparative and evolutionary genomics

GCD is a database for genome-wide sequence family mining in Arabidopsis and Rice.

Open Sputnik is the web-based front end to the open Sputnik project, an open source sequence analysis and annotation pipeline that has been optimized for comparative plant genomics and reconstructomics.

Rice is a major food staple for the world's population and serves as a model species in cereal genome research. The Beijing Genomics Institute (BGI) has long been devoting itself to sequencing, information analysis, and biological research of the rice genome.

Chlamydomonas reinhardtii is a single celled chlorophyte. Highly adaptable, these green algae live in many different environments throughout the world. Normally deriving energy from photosynthesis, with an alternative carbon source, C. reinhardtii can also thrive in total darkness.

Pick primers from a DNA sequence.

DNA manipulation tools