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Gramene Maps Database

Welcome to Gramene's Maps module where you can view genetic, physical, sequence, and QTL maps for many species of cereal crops. CMap — the Comparative Map Viewer — allows you to construct comparisons between different maps. All data (map sets, maps, features, and correspondences) in the Maps Module are built from the Markers Module. Users are encouraged to consult the Markers Module for primary information about markers and their mappings. The Maps Module should be considered to be primarily a visualization tool

Search or Browse Options

Maps	Browse, View and compare maps
Map Search	Search for a map by name
Feature Search	Find a particular feature by name or accession number
Matrix	See the number of correspondences among all maps

Help

Map Sets	Get a description of one or all map sets
Feature Types	Browse the feature types and their descriptions
Map Types	Read descriptions of the different map types
Evidence Types	Get a description of the correspondence evidence types
Species	Get a description of the species
Help	Presents an overview on how to use the Comparative Mapping database tool and lists explanations of field names.
Tutorial	More in-depth than the help pages, use the tutorial for an exaple of using the database, see how it integrates other datasets, and get tips to increase your data search efficiency.
FAQs	Frequently Asked Questions - see what questions users have asked, and get the developers answers.
Release Notes	For more information about the most recent release.

Collaborative Projects

• OMap Data at Gramene - To faciliate comparison with the OMAP physical maps, we have produced a map set titled OMAP Gramene Annotated Nipponbare Sequence. This map set includes features not exported to the regular Gramene Annotated Nipponbare Sequence map set. Furthermore, the OMAP FPC maps are also available as ordered maps. These ordered maps offer faster rendering and a more compact arrangement, where contigs are displayed as a single map rather than as individual entities. The order of contigs on these ordered maps is based on correspondences to a reference map, namely the rice TIGR genome assembly. The user may view contig and clone mappings based on BAC end sequence alignments across a given chromosome.

Download

The Comparative Maps are maps that only contain features with comparisons to other maps. This data can be downloaded in bulk from our ftp site. For original maps with all their features, see the Markers module.

Acknowledgements

Gramene uses CMap. GMOD's CMap - CMap is a web-based tool that allows users to view comparisons of genetic and physical maps. The package also includes tools for curating map data. For a list of data contributors, please see Collaborators and Contributors.

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