Exploring a genomic region in pig
(a) Go to the region from 8,805,953 to 8,858,418 on pig chromosome 11.
(b) Configure this page to turn on the Tandem repeats (TRF) track in this view. What is this track? How many TRF overlap this region?
(c) Create a Share link for this display. Email it to your neighbour.
(d) Export the genomic sequence of the region you are looking at in FASTA format.
(e) Turn off all tracks you added to the Region in detail page.
(a) Go to the Ensembl homepage.
Select Search: Pig and type 11:8,805,953-8,858,418 in the text box (or alternatively leave the Search drop-down list like it is and type Pig 11:8805953-8858418 in the text box). Click Go.
(b) Click Configure this page in the side menu (or on the cog wheel icon in the top left hand side of the bottom image).
Type TRF in the Find a track text box. Select Tandem repeats (TRF). Click on the (i) button to find out more information about this track.
The Tandem Repeats Finder track locates adjacent copies of a pattern of nucleotides.
Save and close the new configuration by clicking on ✓ (or anywhere outside the pop-up window).
There are 19 TRF that overlap this region.
(c) Click Share this page in the side menu. Select the link and copy. Get your neighbour’s email address and compose an email to them, paste the link in and send the message.
When you receive the link from them, open the email and click on your link. You should be able to view the page with the new configuration and data tracks they have added to in the Location tab.
(d) Click Export data in the side menu. Leave the default parameters as they are. Click Next>. Click on Text.
Note that the sequence has a header that provides information about the genome assembly (primary_assembly:Sscrofa11.1), the chromosome, the start and end coordinates and the strand. For example:
>primary_assembly:Sscrofa11.1:11:8805953-8858418:1
(e) Click Configure this page in the side menu. Click Reset configuration. Click.
