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Query on GC content

Thu Mar 18 12:32:00 EST 1993

Dear Colleagues,
I,m trying to collate DNA data from a particular bacterium.
When calculating GC content, is it wise to take only coding
sequence??(There is a marked codon usage bias). It would
seem that taking a large amount of flanking DNA could unduly
bias the numbers, eg alternating py tracts, terminator seqs.
I realise that gross figures for the whole genome are
sometimes quoted (from physical methods), but what is the consensus
 of deriving the number from sequence data- surely the constraints 
are only selected for in the coding regions? Can one thus include
non-translated RNAs in the analysis?
Any opinions welcomed
Best wishes,
Jim Brannigan
Chemistry dept
University of York
York UK

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