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Practice Questions_Module V 1. A sequence of a eukaryotic gene (coding strand) is shown below, RNA polymerase recognizes the sequence ‘TATAAT’ and initiates transcription six nucleotides downstream of the sequence. The intron splice sites are CUU (5’ splice site) and AAG (3’ splice site), poly-A tails are added following the sequence AGUUGG. The poly-A tails are 20 nucleotides. a. Predict the sequence of mature mRNA and denote 5’ and 3’ ends. (2 points) b. If this is an oncogene that is elevated in cancer cells, design a siRNA (RNA duplex) to knock down the mRNA, list the sequences of both strands of the siRNA and highlight the targeted regions on the mRNA in yellow. (2 points) c. If you plan to study whether the gene is regulated by miRNA(s), you will search for potential miRNA target sequences on the mRNA, highlight the region for miRNA targeting in green. (1 point) GATGAGTTAT AATATTTCTC TCCAGGCATG GAGTATTCCG GTGTGCGATC GCCGTTATCG ATCGATCGAT ATCGATCGAA TCCCCCTTTG GACCACCCTG GGTTGCCCTC TAAGCATAAT TCGTCGTCGT ACAACGCCAT GTTTCTGT AATTAAAATT TGTTTGCCTC AGTTGGATGT 2. What is alternative splicing? (0.5 point) Draw out all possible mature mRNAs of Gene A. (1 point) Poly-A Signal Poly-A Signal Gene A 5' Exon1 Intron1 Exon2 Intron2 Exon3 Intron3 Exon4 3' 3. Compare and contrast the mechanisms and function of siRNA and miRNA. (2 points) 4. Describe at least three differences between chromatin regions that are transcriptionally active and those in which genes are transcriptionally silent. (1.5 points)

          Practice Questions_Module V

1. A sequence of a eukaryotic gene (coding strand) is shown below, RNA polymerase recognizes the sequence ‘TATAAT’ and initiates transcription six nucleotides downstream of the sequence. The intron splice sites are CUU (5’ splice site) and AAG (3’ splice site), poly-A tails are added following the sequence AGUUGG. The poly-A tails are 20 nucleotides.
a. Predict the sequence of mature mRNA and denote 5’ and 3’ ends. (2 points)
b. If this is an oncogene that is elevated in cancer cells, design a siRNA (RNA duplex) to knock down the mRNA, list the sequences of both strands of the siRNA and highlight the targeted regions on the mRNA in yellow. (2 points)
c. If you plan to study whether the gene is regulated by miRNA(s), you will search for potential miRNA target sequences on the mRNA, highlight the region for miRNA targeting in green. (1 point)

GATGAGTTAT AATATTTCTC TCCAGGCATG GAGTATTCCG GTGTGCGATC GCCGTTATCG ATCGATCGAT ATCGATCGAA TCCCCCTTTG GACCACCCTG GGTTGCCCTC TAAGCATAAT TCGTCGTCGT ACAACGCCAT GTTTCTGT AATTAAAATT TGTTTGCCTC AGTTGGATGT

2. What is alternative splicing? (0.5 point) Draw out all possible mature mRNAs of Gene A. (1 point)

Poly-A Signal Poly-A Signal
Gene A 5' Exon1 Intron1 Exon2 Intron2 Exon3 Intron3 Exon4 3'

3. Compare and contrast the mechanisms and function of siRNA and miRNA. (2 points)

4. Describe at least three differences between chromatin regions that are transcriptionally active and those in which genes are transcriptionally silent. (1.5 points)

Practice QuestionsModule V

1. A sequence of a eukaryotic gene (coding strand) is shown below, RNA polymerase recognizes the sequence ‘TATAAT’ and initiates transcription six nucleotides downstream of the sequence. The intron splice sites are CUU (5’ splice site) and AAG (3’ splice site), poly-A tails are added following the sequence AGUUGG. The poly-A tails are 20 nucleotides.
a. Predict the sequence of mature mRNA and denote 5’ and 3’ ends. (2 points)
b. If this is an oncogene that is elevated in cancer cells, design a siRNA (RNA duplex) to knock down the mRNA, list the sequences of both strands of the siRNA and highlight the targeted regions on the mRNA in yellow. (2 points)
c. If you plan to study whether the gene is regulated by miRNA(s), you will search for potential miRNA target sequences on the mRNA, highlight the region for miRNA targeting in green. (1 point)

GATGAGTTAT AATATTTCTC TCCAGGCATG GAGTATTCCG GTGTGCGATC GCCGTTATCG ATCGATCGAT ATCGATCGAA TCCCCCTTTG GACCACCCTG GGTTGCCCTC TAAGCATAAT TCGTCGTCGT ACAACGCCAT GTTTCTGT AATTAAAATT TGTTTGCCTC AGTTGGATGT

2. What is alternative splicing? (0.5 point) Draw out all possible mature mRNAs of Gene A. (1 point)

Poly-A Signal Poly-A Signal
Gene A 5' Exon1 Intron1 Exon2 Intron2 Exon3 Intron3 Exon4 3'

3. Compare and contrast the mechanisms and function of siRNA and miRNA. (2 points)

4. Describe at least three differences between chromatin regions that are transcriptionally active and those in which genes are transcriptionally silent. (1.5 points)

Added by Justin R.

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