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Exploring the chicken MYH9 gene

(a) Find the chicken MYH9 (myosin, heavy chain 9, non-muscle) gene, and go to the Gene tab.

  • On which chromosome and which strand of the genome is this gene located?
  • How long is the protein it encodes?

(b) What are some functions of MYH9 according to the Gene Ontology consortium? Have a look at the GO pages for this gene.

(c) In the transcript table, click on the transcript ID for MYH9-209, and go to the Transcript tab.

  • How many exons does it have?
  • Are any of the exons completely or partially untranslated?
  • Is there an associated sequence in UniProt? Have a look at the General identifiers for this transcript.

(d) Are there microarray (oligo) probes that can be used to monitor ENSGALT00010036169.1 expression?

(a) Go to the Ensembl homepage.

Select Search: Chicken and type MYH9. Click Go.

Click on either the Ensembl ID ENSGALG00010015031 or the gene name MYH9 for Chicken Breed: reference.

  • Chromosome 1 on the forward strand.
  • The transcript ENSGALT00010036169.1 and it codes for a protein of 1,960 amino acids.

(b) The Gene Ontology project (http://www.geneontology.org/) maps terms to a protein in three classes: biological process, cellular component, and molecular function. Meiotic spindle organisation, cell morphogenesis, and angiogenesis are some of the roles associated with MYH9.

(c) Click on ENSGALG00010015031

  • It has 41 exons. This is shown in the Transcript summary or in the left hand side menu Exons.
  • Click on the Exons link in this side menu. Exon 1 is completely untranslated, and exons 2 and 41 are partially untranslated (UTR sequence is shown in orange). You can also see this in the cDNA view if you click on the cDNA link in the left side menu.
  • A0A1D5PM19.34 from UniProt matches the translation of the Ensembl transcript. Click on A0A1D5PM19.34 to go to UniProt, or click align for the alignment.

(e) Click on Oligo probes in the side menu.

There are probes from Affy and Agilent that can be used to monitor expression of this transcript.