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Synteny

Start at Ensembl homepage.

  1. Find the rhodopsin (RHO) gene in human. Go to the Location tab and click Synteny at the left. Are there any syntenic regions in duck? If so, which chromosomes are shown in this view?

  2. Stay in the Synteny view. Is there a homologue in duck for human RHO? Are there more genes in this syntenic block with homologues? Which duck chromosome is this human genomic region syntenic to?

  1. Search for human RHO from the home page. Click on RHO genomic coordinates 3:129528639-129535344:1 in the search results to directly open the Location tab. Click Synteny at the left and change the species to Duck next to the image.

    Yes, there are multiple syntenic regions in duck to human chromosome 3, which is in the centre of this view. Duck chromosomes 1, 2, 7, 9, 13, and Z have syntenic regions to human chromosome 3.

  2. Scroll down to the bottom of the page to see a list of homologous genes on both genomes.

    Human RHO is homologous to RHO (ENSAPLG00000005189) in duck. Click 15 upstream genes or 15 downstream genes to view neighbouring genes in this syntenic block. There are many neighbouring genes with homologues in duck. Human genes in this region are homologous to duck genes on chromosome 13, which is also indicated by the red boxes in the image above as this genomic block on human chromosome 3 is syntenic to duck chromosome 13.