BIOL 3090 study guide Chapters 9-11

Chapter 9

9.1 Definition of a "gene" (pages 295-297)

alternative mRNA splicing in eukaryotes -

Figures 9-1, 9-2

9.2 organization of  genes- figure 9-3 (pages 297-299)

Pseudogenes

Amount of DNA in some organisms (page 298)

9.3 transposons and retrotransposons (pages 303-308)

Figures 9-10*, 9-11, 9-12, 9-14, 9-17*

Figure 9-16 is too much

9.4 nothing

9.5 nothing

9.6 Evidence for function of centromeres and telomeres (pages 329-332) - Figure 9-40*

9.7 DNA in organelles Figures 9-43, 9-44 (pages 332-335)

Questions 2, 3, 4

Chapter 10 Regulation of transcription initiation

10.1 Lac operon and transcriptional control (CAP, repressor, cAMP etc.) (pages 342-345)

Figures 10-1, 10-2, 10-3, 10-4

10.2 Evidence for proteins binding to DNA (pages 346-357)

DNA footprinting, gel-shift assays Figure 10-6, 10-7

The PhoR/PhoB system - figure 10-21

Figures 10-6, 10-7, 10-8, 10-9*, 10-10, 10-11, 10-15, 10-16*, 10-17

10.3  Eukaryotic gene control (pages 358-362)

Types of RNA polymerases in eukaryotes

Figures 10-23, 10-25, 10-26

10.4 regulatory sequences (pages 365-369)

Tissue specific expression, TATAA box

promoter-proximal elements, linker scanning

Figures 10-30, 10-34**

10.5 Transcription activators/repressors

These are often modular proteins 10-38, 10-39

Structural types of DNA binding proteins Zn finger proteins, helix-loop-helix etc.  (pages 374-377)

Enhancers are multi-proteins Figure 10-48

10.6 RNA polymerase transcription initiation complex - Figure 10-50 (pages 380-382)

10.7  only Figure 10-61 and only for general sense of the figure

Questions 1-4, 5-7, 9, 10

Chapter 11

11.1 nothing

11.2 RNA processing in eukaryotes (pages 410-418)

Look at overall picture - Figure 11-7*

Capping of the 5' end Figure 11-8

3' cleavage and polyadenylation Figure 11-12* 

mRNA splicing Figures 11-13*, 11-14, 11-15, 11-16

U1snRNA and U2 snRNA Figure 11-17 

11.3  Regulation of mRNA processing (pages 422-423)

Read about the example of Fibronectin Figure 11-24*, 22-22 (yes, chapter 22-22)

Examples of RNA splicing (Figures 11-25, 11-26 and 11-27)

11.4 nothing

11.5  RNA editing 

Only pages 437-438 and Figure 11-39

11.6 nothing

Questions 4-8