largest ORF !

psharp at vax1.tcd.ie psharp at vax1.tcd.ie
Mon Sep 2 07:56:27 EST 1991



Jonathan Walton is looking for large ORFs ....


Indeed, there does exist an excellent program for
accessing GenBank, which can (e.g.) find only those open
reading frames of greater than L nucleotides (you
specify L)  ... this is ACNUC, from Manolo Gouy 
(Universite Claude Bernard Lyon, FR)  - see:

Gouy et al. (1985) Computer Applications in the
                                  Biosciences 1:167-172

contact:  mgouy at evomol.univ-lyon1.fr

- ACNUC has many other very powerful attributes,
which make it an ideal tool, for molecular evolutionists
in particular, but for molecular biologists in general

-for example, the long ORFs in GenBank 68 are:

human apolipoprotein a  (13647 bp)
human apolipoprotein B100 (13692)
human LDL receptor    (13635)
human (& rabbit) ryanodine receptor (15099)
rabbit Ca (14910)

(and a large number of viral polyprotein ORFs at > 10kb)

for fungi only, the Penicillium ACV synthetase (>11kb)
is indeed the largest, followed by IRA2 from yeast
(Saccharomyces cerevisiae) at 9240 bp (M.C.B. 10:4303)

- for this particular function, ACNUC relies on the 
GenBank entries being properly annotated, so there 
may be other (incompletely annotated) long ORFs

Paul Sharp
Genetics, Trinity College, Dublin, Ireland
psharp at vax1.tcd.ie



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