practicefinal Qs

practicefinal Qs - BIMM 100 Practice Final Questions 1)...

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BIMM 100 Practice Final Questions 1) Eukaryotes undergo a much higher organization of DNA than prokaryotes. The proteins ____________ play a major role in organizing DNA into _______________, which are essentially DNA wrapped around an ______________ octamer of histones consisting 2 copies of ___, ___, ___, and ___; ___ sits on top. Decondensed chromatin is called ________________ and condensed chromatin creates a 30nm fiber in a ________ structure. ____________ chromatin refers to regions generally correlated with active transcription while __________ chromatin refers to regions that are generally transcriptionally silent. 2) Is the lac operon promoter weak or strong? Explain how the nature of the promoter affects the transcription of the lac operon when both lactose and glucose are present. Describe how transcription is increased when lactose is the only nutrient in the medium (what happens to the repressor, what other elements come into play?). 3) Outline the intronic features useful during splicing. a.) Which type of reaction is involved during splicing? b.) Theoretically, would you expect DNA to capable of undergoing splicing? c.) What are snRNPs, and how are they useful during splicing? 4.) There are three types of RNA polymerases in Eukaryotes. What does each transcribe. How would you test to see if a protein-coding gene is transcribed by RNAPol I or RNAPol II? You have inhibited a specific kinase using a drug that affects transcription and now you see the following results (global transcriptional output): no drug kinase inhibitor 18s rRNAs +++ +++ prot. genes +++ + 5S rRNA/tRNA +++ +++ What are you inhibiting? Explain. Describe the techniques to: 1. Find regulatory elements (distal, proximal), 2.verify that a particular protein binds a DNA segment, 3. Map where exactly a transcription factor binds the specific DNA. 5.) . Pick and Match: A. Yeast Two hybrid system B. Footprint analysis C. Chromatin Immuno-Precipitation (ChIP) D. In-vitro transcription E. Electorphoretic Mobility Shift Assay (EMSA) F. In-vivo reporter assay 1. _____ Used to see exactly where a purified protein binds on a specific region of DNA.
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2. _____ Used to test the expression levels of a specific promoter when a particular protein is expressed in vivo. 3. _____ Used to test if a particular protein extract is capable of binding to a specific piece of DNA. 4. _____ Used to indirectly test if two proteins interact with each other. 5. _____ Used to see if a specific transcription factor or histone mark is found within a short region of DNA in vivo. 6. _____ Used to test if a purified protein enhances transcription. 6.) There is a gene (gene X) near the telomeres that is normally inactive. In a mutated cell line, this gene X becomes active and the cells now proliferate uncontrollably. One hypothesis is that the Silent-Information Regulator (SIR) is no longer binding this gene. What is SIR and what role would it play in keeping the gene silent?
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practicefinal Qs - BIMM 100 Practice Final Questions 1)...

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