which restriction sites are used ?
Guy Bottu
gbottu at ben.vub.ac.be
Mon Oct 7 10:03:10 UTC 2002
from : BEN
Dear developers,
I am using EMBOSS version 2.4.1. I noticed the following : ApeKI is a
restriction enzyme without commercial provider. If I do "redata ApeKI" I get :
------------
ApeKI
Recognition site is GCWGC leaving sticky ends
Cut positions 5':0 3':0 [5':0 3':0]
Organism: Aeropyrum pernix K1
Methylated: ?(5)
Source: ATCC 700893
Isoschizomers:
TseI AceI Taq52I TseBI
References:
Kawarabayasi, Y. et al., (1999) DNA Res., vol. 6, pp. 83-101.
Xu, S.-Y., Opitz, L., Unpublished observations.
----------------
So, it is there and has a cut site that should match GCAGC.
Yet, when I run remap or restrict with parameters -nocommercial -nolimit on a
sequence containg GCAGC the restriction site is not found. Asking explicitly to
look for enzyme ApeKI does not help, the enzyme is not even mentioned as "enzyme
that does not cut".
Is that normal ?
Guy Bottu
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