I have a problem in my bioinformatics class that I thought I was doing right, bu

Question

I have a problem in my bioinformatics class that I thought I was doing right, but someone else is getting a different answer. Here is the problem:

Given the following DNA sequence, 5'-GGATCGTGCCACCATCCACCATCGTTA-3', if two introns are in bases 3-9 and 15-22, what is the mRNA transcribed? Give the answer 5' to 3'. Note that the first base is base 1.

And here are the steps that I took:

5'-GG ATCGTGC CACCA TCCACCAT CGTTA-3' (remove the bolded)
5'-GGCACCACGTTA-3' (new string)
take reverse complement
swap T's with U's

Is this correct? Or where am I going wrong?

Explanation / Answer

I think the only place you are going wrong is in getting confused about strands ("take reverse complement").

5'-GGATCGTGCCACCATCCACCATCGTTA-3' << coding strand
3'-CCTAGCACGGTGGTAGGTGGTAGCAAT-5' << template strand

The coding strand has the same sequence as the transcribed RNA (apart from T>U), so the primary transcript is:

5'-GGAUCGUGCCACCAUCCACCAUCGUUA

Then, positions of introns:

5'-GG AUCGUGC CACCA UCCACCAU CGUUA

and after splicing:

5'-GGCACCACGUUA

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