We are having considerable difficulty obtaining readable sequence from
several different human nuclear genes. I suspect that GC-richness and/or
secondary structure may be influencing sequencing efficiency, as primers
placed at different locations give the same poor-quality sequence, and we
are using (what has been with other loci) ample quantities of
single-stranded template.
What are the best (or at least most commonly used) methods for addressing
this sort of sequencing problem? References appreciated.
