Link to this post | posted 21 May, 2018 20:13
ksaville	We think we have a translational frameshift of the tail assembly protein. We found the slippery sequence GGGAAA and annotated the two regions. When validating, we get a message saying the two genes share a 5' coordinate. Are we supposed to delete the first gene after editing the second gene to have 2 regions? this gets rid of the error, but I don't see that in the instructions.

Link to this post | posted 22 May, 2018 00:07
cdshaffer	That message is a warning not an error. It comes up because it is easy to get duplicate genes if you use the DNA Master tool to merge multiple DNA Master files. In this case however, you have two genes, a short form and a long form of the TAC with the same 5' end and this is exactly what you want. So it is OK to ignore the warning.

Link to this post | posted 22 May, 2018 01:10
ksaville	Awesome. Thanks chris

Link to this post | posted 24 Dec, 2024 15:25
kissaou	This is Kissaou posting this message regarding bacteriophage: "AzulaCat" · Cluster G · 41901 bp. I am working on the frameshift and realized that I have two slippery sequences: GGGGGAAG (from 11002 - 1100 and GGGAAAAT (from 11027 - 11033). My question nos is which one to use to fix the frameshift? Any advice? Thanks Kissaou

Link to this post | posted yesterday, 17:19
debbie	I would pick the latter, so the slippage is annotated as 10569-11030, 11030-11464. This slippage matches the programmed frameshift of phage Lambda, which is the phage where the slippage was experimentally determined. https://pubmed.ncbi.nlm.nih.gov/8230192/ best, debbie

Link to this post | posted yesterday, 17:28
kissaou	Thanks a lot. Will do that.