rDNA alignments

[Jarmo Wahlfors]

Pat Covello writes:

>I'm interested in amplifying ribosomal DNA including a least
>one spacer (for variability) in a wide range of eukaryotes
>(fungi, nematodes, insects). I'd like to design primers
>with varying specificities. does anyone have or know of
>any alignments of 18S, 5S and or 26S rDNA which would help
>in designing primers?

See Nucl.Acids Res. Suppl. 18 (1990)
Pages 2215-2330 contain compilations of 5S- and small ribosomal
subunit sequences, as well as some secondary structure models
(which are, I think, quite useful for primer design).
However, there may be even fresher NAR-supplement dealing with
the subject. Check your library.

-JW-