Marker Search is a page where users can search for molecular markers in the GDR marker database. Two search interfaces are available: 'advanced marker search' and 'search nearby markers'. In the Advanced Marker Search' users can perform combinatorial queries using categories such as name, type, species, anchored position in genome and/or genetic map position. 'Search Nearby Markers' site allows users to obtain a list of all loci that are within a specified distance of the particular locus on any genetic map.
All the search categories below, except the file upload, can be combined.
1. Marker Name
Users can search these fields for an exact match, contains, starts with or ends with the input, by selecting the desired option from the drop-down menu. Users can also search by aliases. The search is case-insensitive. Users can also obtain marker detail information for a set of markers by uploading a file of marker names. Separate each name by a new line.
2. Marker Type
Users can search markers by type by choosing one of the options in the drop-down menu. Go to 'GDR Marker Types' page for more details.
3. Marker Mapped in Species
Users can choose a species from the drop-down menu to view all the markers that have been placed in the genetic maps from the chosen species.
4. Marker Developed from Species
Users can choose a species from the drop-down menu to view all the markers that have been developed from a species.
Users can search markers by the anchored position in one of the whole genome sequences. Choose a genome in the drop-down menu next to 'Genome' then the corrposponding chromosome or scaffold names will by dynamically generated in the 'Chr/Scaffold' drop-down menu. Choose any option and then type in the position in bp in the text boxes.
For more information on the genome assembly and annotation, as well as to download an Excel file with the markers that are anchored to the genome, please visit each genome page (M. domestica v1.0, P. persica Genome v1.0 and F. vesca Genome v1.0)
Users can search markers by the position in one of the genetic maps. Choose a genetic map in the drop-down menu next to 'Map' then the corrposponding linkage group names will by dynamically generated in the 'Linkage Group' drop-down menu. Choose any option and then type in the position in cM in the text boxes.
For more information on the these maps available in GDR, see the map data summary page.
If you have any questions/comments/feedback about the marker search sites, please let us know via the contact form.