Exploring the Common carp prkci gene
Search for the Common carp gene prkci.
(a) What GO: biological process terms are associated with the prkci gene?
(b) Go to the transcript tab for the prkci-207 (ENSCCRT00000153471.1) protein coding transcript. How many exons does it have? Which one is the longest? How much of that is coding?
(c) How many different domain prediction methods predict a PB1 domain? Where in the protein is this domain?
(a) Go to the Ensembl homepage (http://www.ensembl.org).
Select Search: Common carp and type prkci. Click Go. Click on the gene link ENSCCRG00000007495.2.
Click on GO: biological process in the side menu. Protein phosphorylation and establishment or maintenance of cell polarity are listed as GO: Biological processes associated with this gene.
(b) Click on the transcript prkci-207 (ENSCCRT00000153471.1). Click on Exons in the left hand menu. There are eighteen exons. Exon 18 is longest with 1,572bp, of which around 88 are coding.
(c) Click on either Protein Summary or Domains & features in the left hand menu to see graphically or as a table respectively. The PB1 domain is predicted by SuperFamily, SMART, Pfam and PROSITE. It is towards the N-terminus of the protein. Clicking on the predicted PB1 domain will open a pop-up window that shows you the amino acid coordinates for the predicted domain.
