Alignments to Genome
AtGDB displays high quality spliced alignments for EST, cDNA, PUT, and model species proteins. The current alignment database version is AtGDB171
. For more information see Data & Methods
More about alignments...
Search / Download
Note: sequences displayed here may not reflect the latest Arabidopsis thaliana sequence count at PlantGDB, which can be viewed on our download page.
Sequence analysis tools accessed from the Genome Context View
menu use the current genomic region as input. Or, to access the same tools without a genomic context, use AtGDB left menubar Tools links.
More about tools...
Gene Structure Annotation
Help annotate the Arabidopsis thaliana
genome using our yrGATE gene structure annotation tool (see Overview
), aided by GAEVAL tables
that flag problematic gene models.
Custom Track Display
Distributed Annotation Service (DAS) (see Overview
) is available for displaying remotely served genome alignments at AtGDB, as well as for displaying selected AtGDB tracks on a different genome browser (e.g. Ensembl, GBrowse). How to use DAS...
Additional custom track display features are under development.
Annotated Protein Alignments
A searchable table of splice-aligned, annotated protein models from one or more related species. Select from the left menu under Gene Annotations -> Splice-Aligned Proteins.
Genome browser video demo:
For help pages and tutorials focusing on genome browser features and gene annotation, see side bar.
Projects based on AtGDB can be accessed from the Project Page