Curated Maize V4 Gene Models

Curated Maize V4 Gene Models

The genes in this list were evaluated during a Pilot Community Curation Effort lead by the NSF-funded Gramene (IOS-1127112) and MaizeCode (IOS-1445025) projects. Ten graduate students and one post-doctoral fellow were invited to participate in the first of a series of Maize Annotation Jamborees; eight students continued with the curation efforts over a period of one year. Classical gene models and well-researched gene families were prioritized for inclusion in this effort. We used MAKER-P annotation metrics (Campbell et al, 2014) and the Gramene Gene Tree Visualizer (Olson et al, unpublished) to identify potential annotation errors, and the Apollo Annotation Editor (Dunn et al, 2019) to correct them.

To view the improved gene models in Gramene's genome browser, simply attach this GFF file as a Custom track from any Maize page, such as this Region in Detail. To attach or upload a custom track, click the Custom tracks button in the left side menu of the page and attach the GFF file by pasting its corresponding URL (ftp://ftp.gramene.org/pub/gramene/CURRENT_RELEASE/gff3/zea_mays/curated_...) in the resulting window. Alternatively, if you have clicked on Configure this page, add data by navigating to the Personal Data tab in the configuration window and click on Custom tracks.

The improved models will be soon made available as a permanent track in the Ensembl Gramene browser and also registered at the Track Hub Registry. Click on the embedded links for additional instructions on "Adding Custom Tracks" and "Adding Track Hubs" to the Gramene Ensembl browser.

For additional information about the Maize Annotation Jamborees, please see the MaizeCode Outreach page.