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Ch. 13 - The Genetic Code and Transcription
Chapter 13, Problem 23

The interphase nucleus is a highly structured organelle with chromosome territories, interchromatin compartments, and transcription factories. In cultured human cells, researchers have identified approximately 8000 transcription factories per cell, each containing an average of eight tightly associated RNAP II molecules actively transcribing RNA. If each RNAP II molecule is transcribing a different gene, how might such a transcription factory appear? Provide a simple diagram that shows eight different genes being transcribed in a transcription factory and include the promoters, structural genes, and nascent transcripts in your presentation.

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Start by visualizing a transcription factory as a central hub where transcription occurs. Imagine it as a small, localized area within the nucleus.
Consider that each transcription factory contains multiple RNA polymerase II (RNAP II) molecules. In this case, there are eight RNAP II molecules.
Each RNAP II molecule is responsible for transcribing a different gene. Therefore, you should depict eight different genes being transcribed simultaneously.
For each gene, include the following components: a promoter region where RNAP II binds to initiate transcription, the structural gene which is the sequence being transcribed, and the nascent RNA transcript that is being synthesized.
Arrange these components around the transcription factory, showing RNAP II molecules bound to the promoter regions of each gene, with arrows indicating the direction of transcription and nascent RNA transcripts emerging from the RNAP II molecules.

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Key Concepts

Here are the essential concepts you must grasp in order to answer the question correctly.

Transcription Factories

Transcription factories are specialized nuclear structures where active transcription occurs. They are sites where multiple RNA polymerase II (RNAP II) molecules cluster to transcribe genes simultaneously. Each factory can transcribe several genes, allowing for efficient gene expression regulation and coordination. Understanding their organization helps elucidate how cells manage complex transcriptional activities.
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RNA Polymerase II (RNAP II)

RNA Polymerase II is an enzyme responsible for synthesizing mRNA from DNA templates during transcription. It plays a crucial role in gene expression by binding to promoter regions of genes and catalyzing the formation of RNA strands. The activity of RNAP II is tightly regulated, and its association with transcription factories enhances the efficiency of mRNA production, especially when multiple genes are expressed simultaneously.
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Gene Structure and Transcription

Gene structure refers to the organization of a gene, including its promoter, exons, and introns. The promoter is a regulatory region where RNAP II binds to initiate transcription. During transcription, the gene is transcribed into a nascent RNA transcript, which may undergo further processing before becoming mature mRNA. Understanding gene structure is essential for visualizing how transcription occurs within transcription factories and how multiple genes can be expressed concurrently.
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Related Practice
Textbook Question

Messenger RNA molecules are very difficult to isolate in bacteria because they are rather quickly degraded in the cell. Can you suggest a reason why this occurs? Eukaryotic mRNAs are more stable and exist longer in the cell than do bacterial mRNAs. Is this an advantage or a disadvantage for a pancreatic cell making large quantities of insulin?

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Textbook Question

Present an overview of various forms of posttranscriptional RNA processing in eukaryotes. For each, provide an example.

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Textbook Question

One form of posttranscriptional modification of most eukaryotic pre-mRNAs is the addition of a poly-A sequence at the 3' end. The absence of a poly-A sequence leads to rapid degradation of the transcript. Poly-A sequences of various lengths are also added to many bacterial RNA transcripts where, instead of promoting stability, they enhance degradation. In both cases, RNA secondary structures, stabilizing proteins, or degrading enzymes interact with poly-A sequences. Considering the activities of RNAs, what might be general functions of 3'-polyadenylation?

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Textbook Question

Describe the role of two forms of RNA editing that lead to changes in the size and sequence of pre-mRNAs. Briefly describe several examples of each form of editing, including their impact on respective protein products.

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Textbook Question

Substitution RNA editing is known to involve either C-to-U or A-to-I conversions. What common chemical event accounts for each?

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Textbook Question

While miRNA response elements (MREs) may be located anywhere within an mRNA, they are most often found outside the coding region in the 5' or 3' UTR. Explain why this is likely the case given that miRNAs often target more than one mRNA.

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