Exploring an Anopheles gambiae gene
Start in metazoa.ensembl.org/index.html and select the Anopheles gambiae genome.
(a) What GO: biological process terms are associated with the para gene?
(b) How many protein coding transcripts does this gene have? View all of these in the transcript comparison view.
(c) Go to the transcript tab for the transcript, AGAP004707-RA. How many exons does it have? Which one is the longest?
(d) What large domains can be found in the protein product of this transcript? How many different domain prediction methods agree with each of these domains?
(a) Go to metazoa.ensembl.org/index.html. Click on Anopheles gambiae from the popular species list.
Search for para and click on the AGAP004707 link in the results.
Click on GO: biological process in the side menu.
GO:0006811 ion transport, GO:0006814 sodium ion transport and GO:0055085 transmembrane transport are some of the terms listed.
(b) If the transcript table is hidden, click on Show transcript table to see it.
There are 13 protein coding transcripts.
Click on Transcript comparison in the left hand menu. Click on Select transcripts. Either select all the transcripts labelled protein coding one-by-one, or click on the drop down and select Protein coding. Close the menu.
(c) Click on the transcript named AGAP004707-RA. Click on Exons in the left hand menu.
There are 30 exons, of which exon 30 is longest with 1,017 bp.
(d) Click on either Protein Summary or Domains & features in the left hand menu to see graphically or as a table respectively.
There is a large ion-transport domain predicted by Pfam. A similar region is identified as Superfamily as SSF81324; click through to see that this domain is Voltage-gated potassium channels superfamily. We can see that these two predictions are of the same domain.
