Translation Questions

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Module 5: Translation

Questions:

Q1. First examine reading frame 1. Are there any stop codons in the reported exon? _______ If there are early stop codons, do you think this is the reading frame used during translation?__________________

Q2. Examine reading frame 2. Are there any stop codons in this reading frame within the exon? _________

Q3. Examine reading frame 3. Are there any stop codons in the reported exon? _______

Q4. Using the evidence above, which reading frame maintains an Open Reading Frame (ORF) across exon2 of tra-RA_________________ Is this the same reading frame as that used for exon 1? _________

Q5. Give the coordinates for the entire start codon for tra-RA. (start codon coordinates should be three consecutive numbers, for example: nucleotides 212-214).

________________________

Q6. Which reading frame should we follow along to see the predicted amino acid sequence of tra-RA? _____________

Q7. Zoom out to see the entire exon. Are there any stop codons in this reading frame in the first exon? _______________

Q8. Give the coordinates for the very last base of the first exon. __________________

Q9. Knowing that exon 1 ends with a partial codon of 1 base, what reading frame is being used in the second exon? _____

Q10. Based on the evidence you see in the browser, give the coordinates for the first base of the second exon of tra-RA. _____

Q11. Do you observe an appropriate splice acceptor site just upstream within the intron? ________

Q12. Give the coordinate of the base prior to the 5’ splice site of intron 2 _________________

Q13. How many bases are left in the codon before the splice site, i.e. is this phase 0, phase 1, or phase 2? ______________________

Q14. Locate the 3’ splice site of Intron 2. Give the coordinate of the first base in exon 3 for tra-RA ________________

Q15. Which reading frame is being translated in the final exon? _________________

Q16. Give the coordinates for the bases in the stop codon. ______________________

Q17. Let’s consolidate all the data we found above in one place:

Gene model for tra-RA

Coordinate for start of translation: ____________________

Coordinate for last base of exon 1: ____________________

Coordinate for first base of exon 2: ____________________

Coordinate for last base of exon 2: ____________________

Coordinate for first base of exon 3: ____________________

Stop codon coordinates: ____________________

Take the coordinate information above to draw a map of tra-RA using rectangles to represent exons and connecting lines to represent introns. Label the ends of the exons with the appropriate coordinates and indicate the transcription start site for the tra-RA initial transcript. Below this map, provide a map of the processed mRNA after intron removal. Below this map, indicate the regions that are translated into a protein. Give precise coordinates. Color coding may be helpful.

Q18. To cement your knowledge of gene structure, you could construct a similar map of the spd-2 gene. How many exons does this gene have? _______How many introns? _____ How many isoforms? _______ Use the same approach to determine the coordinates for the exons, and the coordinates for the coding region (another name for the region that is translated).

Last Updated on June 2, 2020 by Essay Pro