Display options on the result page
The result page displays a table with the list of genes satisfying the search conditions. The actual list is available at the top of the page, initially hidden - click on the horizonal arrow next to 'List of genes found' to show it (requires that javescript is enabled in your browser). Several display parameters allow refinement of the output. The table below describes the available options. Since every 'Update Display' triggers a page reload, you can use the back button of your browser to 'undo' your changes. The "text only" checkbox allows you to display the result table as TAB-delimited text file for download and further local processing. Most options are only available for results from the 'genes' search page.
gene & sequence name
by default there is only one gene name column, which shows the CGC gene name - if exists - and the sequence name otherwise. By selecting this checkbox these two names will be displayed in separate columns.
UniProt ID
shows the UniProt (formerly SwissProt/TrEmbl) identifer and provides a link to this database
alleles and transposons
alleles shows available alleles. The database accessible through the "Mutations' search page contains only those alleles, where the molecular nature of the change is known. Results from the 'Genes' search page contain all available alleles. Transposons shows transposon insertions linked to the gene (currently only 'ttTi' and 'cxTi' alleles)
GO terms
shows the Gene Ontology terms associated with the gene
wrap after x domains
forces the domain display to wrap (start a new line) after the given number of domains. Use for large proteins, which would extend beyond the screen, or to force the domain column into a smaller size, so that other columns can get more space.
Show protein domains or sequence
Protein domains (SMART or Pfam domains) are displayed as rectangles. The size is of the rectangle does NOT reflect the actual size of the domain. A table of abbreviations is used for selected domains. Numbers in boxes reflect numbers of amino acids and indicate parts of the protein not assigned to any domain. SMART/Pfam domains not found in the abbreviation table are displayed as gray rectangle with the SMART/Pfam identifier in it. They are links to the corresponding SMART/Pfam entry.
Alternatively the protein sequence can be displayed.
show additional data
you can display one or two of the following additional data sets:
- description: the 'concise description' of the gene (see Wormbase)
- expression: all expression patterns associated with the gene
- RNAi phenotype: all the RNAi phenotypes associated with the gene
- mutant phenotype: all the mutant phenotpess of all alleles of the gene
- orthologs: orthologs from human, mouse, Drosophila, yeast (S. cerevisiae) and other nematode species
map position
shows either the genetic or physical map position of the gene
limit output to: longest splice variant
shows only the longest splice variants for genes with alternative splice forms
limit output to: genes with alleles
suppresses all genes that do not have alleles (you need to check 'alleles' in the left column of the display options, if you want to see the alleles)
limit output to: the first xxx genes after sorting ....
If set to a value other than '0', this will limit the output to a certain number of genes. Use the drop-down list to select a column for sorting prior applying the limit. Only visible columns can be used for sorting. If your column of choice does not show up in the list, select it in the display options and update the display. This will also update the options for sorting.