Human Genome Browser

Discovery Questions


Part One

1) Analyze the dystrophin gene. On Genome Browser page <http://genome.ucsc.edu/goldenPath/hgTracks.html> , enter the name “dystrophin” and hit the “submit” button. You will get a list of hits. Click on the complete CDS link and then on the top link of the next page. You will get a graphic view of the human dystrophin gene. Use the button to zoom out 1.5X.

2) Are there any STS markers in this region?

3) Look at the Gap and Coverage lines. Has the public Human Genome Project sequenced all of the chromosome in this region?
(white = no coverage; light gray = predraft of less than 4X shotgun coverage; medium gray = draft of at least 4X shotgun coverage; dark gray = multiple draft coverage with overlapping pieces of the same DNA region; black = finished sequence)

4) How many mRNAs are there that utilize more than one exon? What do you think this indicates?

Part Two

1) At the top of this window, enter this chromosomal region from chromosome 7: “chr7:26820341-27311673”. You want to turn off most options to focus on the possible evolutionary conservation of this region (choose "dense" for the fish and mouse options). We are looking at some of the Hox genes which are critical to embryonic body development.

2) Does this region appear well conserved in the mouse? Support your answer with data.

3) Does puffer fish express Hox genes too?

4) Set repeat masker to “dense” and refresh this diagram. Do Hox genes contain a lot of repeats (black indicates repeat sequences) compared to portions outside the Hox genes? Do you think this is significant? Explain your answer.

5) Set the two SNP (single nucleotide polymorphisms which can be thought of as point mutations) options to dense. Are there many polymorphisms in the Hox genes? Do you think this is significant? Explain your answer. For a comparison, click the “move <<<” button at the top left of the window.

Hands-on Page


Genomics Course Page

Biology Department Main Page



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