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Setaria italica genome (scaffolds)  ? • SiGDB alignment v187 (transcript sequences up to Feb. 2012)

Genome / Gene Models

The genome assembly displayed at SiGDB is version JGI 8x v2 Sitalica_164; gene models are from Sitalica_164. For more information see Data & Methods. More about the genome...

Alignments to Genome

SiGDB displays high quality spliced alignments for EST, cDNA, PUT, related species protein, and Probe. The current database version is SiGDB187. For more information see Data & Methods.

Search / Download

Search or download any sequence from SiGDB using Search / Download links at left. Complete datasets can also be downloaded from the SiGDB Download page or by ftp. More about search / download...

View the latest Setaria italica sequence count at PlantGDB.


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 SiGDB left menubar Tools links. More about tools...

Community Annotation

Help annotate the Setaria italica genome using our yrGATE gene structure annotation tool (see Overview), aided by GAEVAL tables that flag problematic gene models. Video demo: QuickTime   Flash  

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Custom Track Display

Distributed Annotation Service (DAS) (see Overview) is available for displaying remotely served genome alignments at SiGDB, as well as for displaying selected SiGDB 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.


Genome browser video demo: QuickTime  Flash 
For help pages and tutorials focusing on genome browser features and gene annotation, see side bar.

SiGDB is being developed as a part of our NSF-funded project "Cyberinfrastructure for (Comparative) Plant Genome Research Through PlantGDB" (PI: Volker Brendel). The purpose of this resource is to provide a convenient sequence-centered genome view for Setaria italica, with a narrow focus on gene structure annotation.

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