Welcome to the database of gene expression in Capsella bursa-pastoris.

Annotation and gene sequences for C. bursa-pastoris genome can be downloaded from http://capsella.org

C. bursa-pastoris is an allotetraploid resulted from the hybridization of two species – one is close to C. rubella/C. grandiflora and the other – to C. orientalis. Thus most of its genes are represented by two copies located in homoeologous chromosomes. Being partially redundant, homoeologous genes are a target of neo-functionalization (acquisition of a new function), sub-functionalization (divergence within the ancestral function) or non-functionalization (loss of gene or its inactivation). Expression profiles of homoeologous genes can give clues about these processes.

Here we represent profiles of 13123 pairs of homoeologs in 14 organs and developmental stages. Each homoeolog pair is matched to the orthologous gene of Arabidopsis thaliana. To start browsing expression profiles enter Arabidopsis gene ID in ATxGxxxxx format or abbreviated gene name (for example, LFY but not LEAFY, SAP but not STERILE APETALA). The search using C. bursa-pastoris gene names will be made available soon.

The homeolog from subgenome A will be shown in the first column and the homeolog from subgenome B will be shown in the second column.

For each homoeolog expression level can be represented in two ways: as number of reads (option Raw norm) or as a fraction of maximum level (option 0-1). In case if the expression of homoeologs within a pair is significantly different, the measure of difference (fold change) is reported.

Example 1: expression of AGL20 (AT2G45660) orthologs in C. bursa-pastoris. Note difference in expression of homoeologs.

Example 2: expression of SMO2-1 (AT1G07420) orthologs in C. bursa-pastoris. No significant difference in expression of homoeologs.