Quick Queries

Categories
• Microsatellites and STS's
• Markers and Mapped Genes
• Mapped Sequences
• Sequences
• QTLs
• Genes
• Polymorphisms
• References
• Address Book
• Germplasm

Microsatellites and STS's

SSR primers and corresponding mapped loci.
Improvements suggested by Christie Williams, Simon Berry and Tim Langdon.
AM* BARC* Bmac* Bmag* CFA* CFD* CFE* CFT* CWEM* CWM* EBma* GDM* GPW* Hv* PSP* SCM* WMC* WMS* * SSR set (* for all)   
Primers
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
  Distance
  On map: Any   Wheat Composite
  
  Nearby Genes
  A modification that shows only the Genes near the specified locus.
  Suggested by Angelo Karakousis and Victor Aguilar.
  Locus
  Distance List all Loci
  Nearby QTLs
  A modification that shows the QTLs near the specified locus.
  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
  Type
  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.
 Species

• 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

BLAST hits
Best Peptide hits for a set of DNA sequences.
Nucleotide hits.
Count of sequences by cultivar
Suggested by Gerry Lazo.
 Species

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

• 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.
  

Polymorphisms

Allele differences (polymorphisms) between two germplasm lines


Allele identities (monomorphisms) between two germplasm lines


Suggested by Michael Wanous.

References

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

Germplasm

• 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.