Exam Prep - Practical Review Questions Flashcards
You perform a protein BLAST search entering your query sequence. The BLAST database returns about 100 ‘hits’ or subject sequences that match your query sequence to varying degrees. For the sake of simplicity, let’s consider only the 44 hits shown below (in image)
Question 1.
From how many genes are the protein hits in this list produced?
(a) 2
(b) 3
(c) 9
(d) 11
(e) 41
(f) 44
The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches.
You perform a protein BLAST search entering your query sequence. The BLAST database returns about 100 ‘hits’ or subject sequences that match your query sequence to varying degrees. For the sake of simplicity, let’s consider only the 44 hits shown below (in image)
Question 2.
How many of the protein hits are produced from protein kinase genes?
(a) 2
(b) 3
(c) 9
(d) 11
(e) 41
(f) 44
You perform a protein BLAST search entering your query sequence. The BLAST database returns about 100 ‘hits’ or subject sequences that match your query sequence to varying degrees. For the sake of simplicity, let’s consider only the 44 hits shown below (in image)
Question 3.
How many of the protein hits are produced from protein kinase C genes?
(a) 2
(b) 3
(c) 9
(d) 11
(e) 41
(f) 44
You perform a protein BLAST search entering your query sequence. The BLAST database returns about 100 ‘hits’ or subject sequences that match your query sequence to varying degrees. For the sake of simplicity, let’s consider only the 44 hits shown below (in image)
Question 4.
If we assume that all protein kinase C proteins that exist are shown in this list, then how many genes does the protein kinase C gene family consist of?
(a) 2
(b) 3
(c) 9
(d) 11
(e) 37
(f) 44
The following details are given for a gene X. They all relate to the gene’s genomic location.
Gene start: chr17: 7,687,490.
Gene end: chr17: 7,668,421.
Coding sequence start: 7,686,998.
Coding sequence end: 7,675,381.
Number of exons: 10.
Start codon in exon number: 1
Stop codon in exon number: 9
Question 5:
What is the length of the 5’ UTR of this gene?
(a) 108
(b) 492
(c) 6,960
(d) 11,617
(e) 12,109
(f) We do not have enough information to be able to know.
The following details are given for a gene X. They all relate to the gene’s genomic location.
Gene start: chr17: 7,687,490.
Gene end: chr17: 7,668,421.
Coding sequence start: 7,686,998.
Coding sequence end: 7,675,381.
Number of exons: 10.
Start codon in exon number: 1
Stop codon in exon number: 9
Question 6.
What is the length of the 3’ UTR of this gene?
(a) 108
(b) 492
(c) 6,960
(d) 11,617
(e) 12,109
(f) We do not have enough information to be able to know.
The following details are given for a gene X. They all relate to the gene’s genomic location.
Gene start: chr17: 7,687,490.
Gene end: chr17: 7,668,421.
Coding sequence start: 7,686,998.
Coding sequence end: 7,675,381.
Number of exons: 10.
Start codon in exon number: 1
Stop codon in exon number: 9
Question 7.
New research has determined that intron 9 is located at genomic coordinates:
Chr7: 7,669,312-7,674,001.
If/how does this affect the length of the 3’UTR? What is the ‘new’ length of the 3’ UTR of this gene?
(a) 1,448
(b) 2,271
(c) 4,822
(d) 10,559
(e) 12,109
(f) We do not have enough information to be able to know.
Interpret what we are looking at in above histogram on the y-axis.
The y-axis shows:
(a) How many samples in each ‘bin’ have a TP53 mutation.
(b) How many samples in each ‘bin’ have an FBXO5 mutation.
(c) How many samples in each ‘bin’ have copy number changes.
(d) The expression level of the FBXO5 gene.
(e) The frequency/number of the samples within each ‘bin’. (See image)
Fill in numbers on the following five blank lines.
Julia has a plasmid that is 6000 base pairs long. It has one HindIII restriction enzyme site at position 1000 and one EcoRI restriction enzyme site at position 1500.
First, Julia digests this plasmid with HindIII only. When she runs this reaction on an agarose gel, she sees __________ DNA fragment(s). The longest fragment is __________ base pairs long.
Then she digests this plasmid with both enzymes. When she runs this reaction on an agarose gel, she sees __________ DNA fragment(s). The longest fragment is __________ base pairs long. The shortest fragment is __________ base pairs long.
View image then answer following
Which of the following are important features a mutagenesis PCR reaction? Select all that apply.
(a) We need to use Taq DNA polymerase, because it is important that the enzyme adds an ‘A’ to the end of the PCR product.
(b) We need to use a DNA polymerase with high fidelity.
(c) We use only one primer during a mutagenesis PCR.
(d) When we design primers for mutagenesis reactions, we need to make sure that they carry the desired mutations in the middle of the primer.
(e) The time to denature the DNA during each cycle of a mutagenesis PCR reaction is usually longer than for a regular PCR reaction.
Q20
