- Course overview
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- Why Ensembl?
- What is Ensembl?
- When to use Ensembl
- How to access Ensembl
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- How to search Ensembl
- How to search Ensembl
- Exploring sources of biological data
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- Ensembl tools
- Summary
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A region in detail
The location tab’s main display is the ‘region in detail’, which shows a region of the genome up to 1 Mb long in a highly customisable view (Figure 23). The ‘Region in detail’ display supports data visualisation from numerous sources (also see the video 11 that demonstrates the ‘Region in detail’ view for LCT gene).
- Whole chromosome. The chromosome is shown at the top, with the position of the region of interest marked by a red box. You can use this image to zoom in and out of the chromosome.
- Overview. An overview of all genes, centred on the gene of interest (in this case, BRCA2), is shown. Each gene is clickable, and following links to gene or transcript IDs opens the gene or transcript tab, respectively. The genome is divided into light and dark blue bars, reflecting individual contigs. Information such as markers can be added to the top panel by turning on data types in ‘configure this page’.
- Main panel. The section in the lower part of the region in detail panel is highly customisable, and can be zoomed in (down to 1 bp) or out (up to 1 Mb). To change the zoom you can use the zoom slide, type in a new location or gene, or click and drag a box around a region with your mouse. A number of data tracks (sets of data that can be plotted against the genome) are shown, and can be turned on and off using ‘configure this page’. Find out more information about any track by clicking on the name.
 Data tracks can be turned on using the ‘Configure this page‘ tool at the left of the page. |