Find genetic markers that are located within the given genomic region. Default: Gm01:1000000-2000000.

Find genes which are annotated by the given GO term. Default: photosynthesis.

Given a gene, show its homologues (based in this mine on common gene family membership). Default: Glyma.12G011700.

Find genes within a given region. Default: Gm01:1000000-2000000.

Given a gene, provide its GO ontology annotations. Default: Glyma.12G011700.

Find publications containing the given string in the title. Default: expression.

Find GWAS that show segregation for the desired phenotype. Default: Seed weight.

Find genes that express above a given value in the given sample. Default: above 1000 TPM in young leaf. Note: if you'd like to study differential expression, make one list of genes with expression above a certain amount in a sample and another with expression below a certain amount in a different sample. Intersect the two lists and you have genes that satisfy both criteria.

Find genes associated with a term in the description of GO terms, along with their upstream flanking regions. Default: "nodule".

Display the proteins and their (truncated) sequences associated with a given gene. Default: Glyma.01G000600.

Show the publications which have an author whose name contains the given string. Default: Grant.

Show the transcripts for genes whose description contains the given string. Default: HD-Zip.

Display the transcripts and their (truncated) sequences for a given gene. Default: Glyma.01G005400.

Display the expression in various tissues for the given gene. Default: Glyma.01G000300.

Show the synteny blocks (containing pairs of syntenic regions) within the given region. Default: Gm01:2000000-3000000.

Show proteins for genes whose description contains the given string. Default: HD-Zip.

List genes whose description contains the given string. Default: HD-ZIP.

This template is useful if you have a list of genes that you think may share an upstream promoter (cis-regulatory region). Create a list from the upstream Gene Flanking Regions found by this template, and then view it -- the Motif Search widget will display any highly common motifs.