A stop codon killed my ORF!
C.Emilie at gmail.com
Sat Mar 5 12:36:58 EST 2005
After performing multiple RACE PCR experiments in order to obtain the
5'end of my gene, I finally succeded in obtaining the entire gene.
Everything seemed to be ok, the predicted peptide showed good
alignement to other related proteins with plenty of conserved regions,
but... there is a stop. About 600 bp downstream the ATG [total length
= 2.8 Kb] . There are conserved regions before and after the stop.
I checked the sequence several times, reamplifying with a
proof-reading polymerase as well as my usual one.
I am looking for a plausible explanation. Why the stop? Could it be a
pseudogene? why would it be transcribed?
Could it be a defect in splicing a small intron, resulting in the
I don't really know how to justify that result, can you help?
Any advice is grately appreciated!
Department of Biological Sciences, Warwick University
c.emilie at gmail.com
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