True sequence type/orientation in a GenBank record?
philipp.pagel at gmx.de
Wed Jun 11 16:36:27 EST 2003
Peter Frank <peter_frankde at yahoo.de> wrote:
> Assuming I found a GenBank record with a sequence of interest and the
> definition line designates the sequence as mRNA or some other type of
> RNA, then is the sequence given really the RNA sequence or is it the
> sequence of the complementary cDNA?
cDNA is not complementary to the RNA sequence, it's an exact copy (well,
ideally). The only difference is the use of U instead of T in the RNA.
The first strand is synthesized by reverse transcriptase and is of
course complementary. The second strand (synthesized by DNA polymerase)
is identical to the original RNA. The sequence of the latter is given in
The paragraph you quoted just gives examples of the simple statement
that you should call DNA "DNA" and RNA "RNA" regardeless of how exactly
you got the sequence (directly sequenced or with a copy step in between)
Dr. Philipp Pagel Tel. +49-89-3187-3675
Institute for Bioinformatics / MIPS Fax. +49-89-3187-3585
GSF - National Research Center for Environment and Health
Ingolstaedter Landstrasse 1
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