1. Review previous two sets of study questions and old tests.

2. Read Scientific American paper on Zinc Finger Proteins

3. Explain the "Big Experiment" that was conducted in lab. What were we trying to find? What smaller experiments were part of this big experiment and why were they done?

4. How were hnRNP proteins identified?

5. Explain the roles of CPSF, PAP, and PAB II in polyadenylation.

6. Explain two ways of mapping an intron

7. Outline the steps and factors involved in splicing

8. During iron metabolism, intracellular iron concentrations are regulated through both mRNA degradation and translation. How is this accomplished?

9. Explain a standard 5'-deletion experiment used to characterize a promoter.

10. How would you clone the gene for a transcription factor?

11. Name and describe two assays for monitoring the interaction between
a protein and a nucleic acid.

12. Describe four classes of eukaryotic transcription factors?

13. Describe how the yeast two hybrid system can be used to identify a protein that interacts with your favorite protein.

14. Define a pseudogene, gene family, and enhancer.

15. Compare and contrast the two methods for making transgenic mice: random integration and specific intergration.

16. Explain the southern blot procedure used in lab.
 

Finally, to tie it all together, try to answer these questions in painful detail
 

You work with protein X that binds to specific sequences of RNA. You have preliminary data that suggests X does not work alone and that other proteins interact to help it bind RNA. How would you go about finding a gene for one of these "other proteins?" Once you found the gene (let's say it is Y), how would you show that the protein product of gene Y does indeed interact with protein X to bind RNA? How could you show that Y first needs to bind to X before there is any RNA-binding? How could you explore and map the interactions between protein X and Y? How would you go about characterizing the promoter for gene Y? How would you find a transcription factor that activates transcription of gene Y?