The chart below is a position specific scoring matrix (PSSM, a logarithmic transformed matrix) for a transcription factor binding site. (1). Evaluate a sequence “GACATTCA” to find out which segment of the sequence fits the binding site best. (2) What is the max score that a sequence can have with this PSSM? (3) What is the minimum score a sequence can have with this PSSM?

A drug called garcinol, isolated from Garcinia indica (a fruitbearing tree commonly known as kokum), is a potent inhibitor of histone acetyltransferase. Would you expect this drug to enhance or inhibit transcriptional initiation and elongation?

a. How do bacteria increase the efficiency of gene expression? Is this possible in eukaryotes? b. A mutation in the promoter of Gene K disrupts an enzyme binding site and results in the loss of Gene K expression. Is this change in gene expression likely happening at the transcriptional or the translational level? Explain. c. Propose three different mutations to prevent initiation, elongation, and termination of bacterial transcription, respectively. Explain how/why each mutation would prevent its respective step. (Hint: mutations can be in genes that encode proteins or regulatory DNA sequences)

DNA methylation status is associated with transcriptional activity. First, describe the specific mechanism by which DNA methylation can control gene activation. Next, hypothesize what would happen to transcription in a cell that expressed an nonfunctional maintenance methyltransferase. Please give me long detailed answer.

Using the transcription unit diagrammed below, in which exons are represented by blue boxes and introns are represented by the connecting lines.  You discover a single base deletion in region E of this DNA sequence. Regarding transcription, this mutation will likely: 1.) Result in an alteration to the mRNA sequence. 2.)Have no effect on transcription or the mRNA sequence 3.)Prevent transcription at the TATAA box 4.) Result in an increase or decrease in the amount of mRNA transcribed

What is a frameshift error? Does the binding of methionine tRNA to the small subunit help reduce frameshift errors? If so, how?

A string of 8 adenine nucleotides in the mRNA is required for function of an intrinsic transcription terminator in bacteria. True False

Many promoter regions contain CAAT boxes containing consensus sequences CAAT or CCAAT approximately 70 to 80 bases upstream from the transcription start site. How might one determine the influence of CAAT boxes on the transcription rate of a given gene?

What does it mean to study the subcellular localization of a protein? What are two techniques that could be used to study the subcellular localization of a protein? Then specify how each of these techniques could be used to study a transcription factor in liver cells

RNA knockdown has become a powerful tool in the arsenal of methods used to repress gene expression. Briefly describe how gene expression can be knocked down. What effect would introducing siRNAs to TSC1 have on human cells?