User:JoannePulcina/sandbox

A karyotype is available for some species in Ensembl Genomes. If the karyotype is available there will be a link to it in the Gene Assembly section of the species page. Alternatively if users are in the ‘Location’ tab they can also view the karyotype by selecting ‘Whole genome’ in the left-hand menu. Users can click on a location within the karyotype to zoom in to one specific chromosome or a genomic region. This will open the ‘Location’ Tab, if it was not previously opened.

In the 'Location' tab, users can browse genes, variations, sequence conservation, and other types of annotation along the genome. The 'Region in detail' is highly configurable and scalable, and users can choose what they want to see by clicking on the 'Configure this page' button at the bottom of the left-hand menu. By adding and removing tracks users will be able to select the type of data they want to have included in the displays. Data from the following categories can be easily added or removed from this 'Location' tab view: 'Sequence and assembly', 'Genes and transcripts', 'mRNA and protein alignments', 'Other DNA alignments', 'Germline variation', 'Comparative genomics', among others. Users can also change the display options such as the width. A further option allows users to reset the configuration back to the default settings.

More specific information about a select gene can be found in the ‘Gene’ tab. Users can get to this page by searching for desired gene in the search bar and clicking on the gene ID or by clicking on one of the genes shown in the ‘Location’ tab view. The ‘Gene’ tab contains gene-specific information such as gene structure, number of transcripts, position on the chromosome and homology information. This information can be accessed via the menu on the left hand side.

A 'Transcript' tab will also appear when a user chooses to view a gene. The transcript tab contains much of the same information as the GeneView page, however it is focused on only one transcript.