SMC1 in Saccharomyces cerevisiae
SMC1 protein is a subunit of the cohesin complex which holds together sister chromatids before they separate at metaphase.
(a) Find the SMC1 gene in Saccharomyces cerevisiae.
- On which chromosome and strand is this gene located?
- How many synonymous variants are found within SMC1?
- What is the NCBI Gene name for this gene?
- What are the functions associated with this protein?
(b) SMC1 only has one transcript, so the transcript tab is already displayed. Go to the transcript tab. Are there any coiled-coil domains in the protein product of this transcript.
(c) Go to the Region in Detail view.
- Can you zoom out to encompass the two neighbouring genes.
- Are there any repeat sequences within SMC1? (You may need to add some tracks to answer this question.)
(a) Start at fungi.ensembl.org and click on Saccharomyces cerevisiae on the homepage. Search for smc1 and click on the result.
The gene is on chromosome VI on the forward strand.
Click on Variant table in the left-hand menu, then click on Consequences above the table.
There are 29 synonymous variants.
Click on External References in the left-hand menu.
The gene is also called SMC1 in NCBI.
To see functions, click on GO: biological process.
There are various functions associated with cell division and the mitotic spindle.
(b) Click on the transcript tab at the top of the view. Go to Protein summary in the left-hand menu.
There are 10 blocks representing coiled coils.
(c) Click on the location tab at the top of the view. Click and drag out a box in the region overview in the middle of the page, selecting the neighbouring genes. Click on Jump to region in the pop-up.
Select Configure this page, then Repeat regions in the pop-up. Choose All repeats then click on the tick to save and close.
You will see two repeat regions within SMC1.
