Quick Queries

Expedited access to GrainGenes' most Frequently Asked Queries.
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Microsatellites and STS's

  • SSR primers and corresponding mapped loci.
    Improvements suggested by Christie Williams, Simon Berry and Tim Langdon.

     SSR set (* for all)   
      Map locations on chromosome (* for all)
      Mapping data: segregation scores for these SSRs in all populations for which we have the data.

  • STS primers
    "Sequence-Tagged Sites", primers designed to amplify specific sequences.
    Source species (* for all)  
  • Markers and Mapped Genes

  • Download a whole map (Map_Data)
    Linkage groups, Loci and positions, and the corresponding Probes.
    Suggested by Gramene.

    Map_Data name  
    List Map_Data names
  • Download mapping scores for a whole map (Map_Data)
    Suggested by Clare Nelson.

    Map_Data name 
    List Map_Data records that have scores
  • Download all mapping scores in GrainGenes
    Suggested by Matthieu Falque.
  • Nearby Loci
    All Loci within a specified distance of a specified Locus on any map.
    Suggested by Jim Anderson; improved by Yavuz Barbaros.

    Locus  List all Loci

    On map:
    Wheat Composite 
  • Nearby Genes
    A modification that shows only the Genes near the specified locus.
    Suggested by Angelo Karakousis and Victor Aguilar.

    Distance   List all Loci
  • Nearby QTLs
    A modification that shows the QTLs near the specified locus.

    Distance   List all Loci
  • Loci between two markers
    All Loci that are between two specified Loci on any map.
    Suggested by Molly Jahn and Gilly Sanchez.

    Locus 1
    Locus 2  List all Loci
  • Locus types
    Loci of a particular type from a particular species

  • Trait markers
    Linkages between useful genes and molecular markers.
    From Greg Penner's 2_Point_Data database.
  • All maps for a given Probe
    Suggested by Mark Sorrells.

      List all Probes
  • Genes by chromosome group
    Genes mapped to a specified chromosome group.
    Suggested by Angelo Karakousis.

  • Probes mapped to a specified chromosome
    Suggested by Jon Raupp.

  • Mapped Sequences

  • Sequenced probes that have been mapped in

    (* for any species) 
  • Mapped known-function probes
    Cloned genes that have been mapped in a particular species.
    Suggested by Peter Hedley; improved by Barbara Read.

  • Sequenced genes
    Listed by Gene Class. With map location if available.
    Suggested by Peter Mascia.<
  • Mapped STS's
    FASTA sequence data only.
    Suggested by Philippe Leroy.
  • Loci for a specified sequence
    Suggested by Tim Close.

     GenBank Accession 
  • Loci homologous to a specified sequence

     GenBank Accession 
  • Probes homologous to a sequence of specified function
    Suggested by Jose Gonzalez-Hernandez.
    (wEST-SQL Database, mapped wheat ESTs from the NSF project.)

     (Don't use wildcard *s.) 
  • Sequences

  • Count of sequences by cultivar
    Suggested by Gerry Lazo.

  • EST contigs vs. libraries
    Compare treatments that produced ESTs in the same Contig.
    Suggested by Tim Close.

    Treatment 1
    Treatment 2  List all Treatments
  • QTLs

  • QTLs for a specified trait, or all.

    Trait (* for all)  List all QTL traits
  • Trait scores from a specified QTL mapping study

    Trait Study    List all QTL Trait Studies
  • Marker scores from a specified QTL mapping study

    Trait Study   List all QTL Trait Studies
  • Genes

  • Genes by class and chromosome
    Use '*' to specify a gene or gene prefix and a chromosome, group (5*) or genome (*B).
    Suggested by Bob Bowden.

  • Genes vs. germplasm lines
  • Alleles vs. germplasm lines
  • Barley genes
    Symbols, synonyms, chromosomes, and references for Hordeum genes.
    Most of these are from von Wettstein-Knowles (1993) and Barley Genetics Newsletter volume 26.
    Other major sources are the Wheat Gene Catalogue and Joergensen (1993)'s catalogue of Ml genes.


  • Allele differences (polymorphisms) between two germplasm lines

      List germplasms with allele data
  • Allele identities (monomorphisms) between two germplasm lines

    Suggested by Michael Wanous.


  • Search by Author, Keyword, and/or Date.
    (Author and Keyword can be left blank. "since" must be a number.)

    Keyword,    since
  • Search reference titles and keywords.
    Suggested by Victoria Carollo.
  • "OR" search

    Keyword 1  Keyword 1 only
    Keyword 2 Keyword 1 or 2
    Keyword 3 Keyword 1 or 2 or 3
    Keyword 4 Keyword 1 or 2 or 3 or 4
    Keyword 5 Keyword 1 or 2 or 3 or 4 or 5

  • "AND" search
    Keyword 1
    Keyword 2 Keywords 1 and 2
    Keyword 3 Keywords 1 and 2 and 3
    Keyword 4  Keywords 1 and 2 and 3 and 4
    Keyword 5 Keywords 1 and 2 and 3 and 4 and 5

  • Address Book

    • Plant breeders
      Colleagues whose position or research interest includes breeding.

    • Colleagues
      All colleagues for which GrainGenes has an email address and/or photograph.


    • Resistant germplasm
      Accessions rated as "Resistant" or "Immune" or "Low sporulation" from the Wheat Genetics Resource Center (WGRC).
      (Note: not all of the WGRC collection is in the database yet.)
      Suggested by Jon Raupp.
    • ICARDA durums
      Names, ICARDA accession numbers and pedigrees.