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Gramene Database information on Zea mays
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Gramene Queries
Pre-designed Zea Queries
- Show me all the maize markers in Gramene.
- Show me all the maize QTL in Gramene.
- What are the best maps to use to compare maize to rice?
- Show me a syntenic region between maize and rice.
- To perform this query, open the Markers database by using the main navigation bar of Gramene.
- Use the Marker navigation bar to open the Marker Search function.
- Type "*" in the "Marker Name" box and select "Maize" from the "Species" drop-down menu.
- A "Search Results" page will appear with a list of all available maize markers in Gramene.
- Note: Maize can be replaced by another species to perform similar marker searches.
Show me all the maize QTL in Gramene.
- To perform this query, open the QTL database by using the main navigation bar of Gramene.
- Use the QTL navigation bar to open the QTL Simple Search function.
- Type "*" in the "Search for" box and select "Maize" from the "Species" drop-down menu.
- A QTL search results page will appear with a list of all Maize QTL in Gramene.
- Note: Maize can be replaced by another species to perform similar QTL searches.
What are the best maps to use to compare maize to rice?
- To perform this query, open CMap (Gramene's comparative map viewer) by using the main navigation bar of Gramene.
- Use the CMap navigation bar to open the Matrix.
- In the "Restrict Reference Sets By" section, select maize from the "All Species" field, and then click on "Submit."
- A Matrix results table will appear. Down the page vertically, all the maize maps will appear. Across the page horizontally, all the other maps in CMap will appear.
- Scroll horizontally until you reach the rice section. The numbers in the individual cells indicate the number of correspondences the maps contain, i.e., the greater the number, the better the maize map to compare to rice.
- Note: Maize can be replaced with any other species in Gramene to perform similar searches.
Show me a syntenic region between maize and rice.
- Using the above example, examine the numbers in the Matrix table.
- The GR TIGR Assembly and IBM2 Neighbors 2004 have a large number of correspondences. Selecting that number will display a Matrix table that will display the individual number of correspondences for each chromosome.
- Maize chromosome 1 and rice chromosome 3 have a large number of correspondences. Selecting that number will display a comparative map view of the two maps.