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Recent Activity
Debbie Jacobs-Sera posted in Whole phage starterator reports
cdshaffer posted in Whole phage starterator reports
Shallee Page posted in Plaques appear on spot test, don't appear in titer
Viknesh Sivanathan posted in Plaques appear on spot test, don't appear in titer
Debbie Jacobs-Sera posted in Plaques appear on spot test, don't appear in titer
Choice of join in frameshift
| Link to this post | posted 12 Mar, 2021 04:56 | |
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I am trying to do the programmed translational frameshift in a Microbacterium EA6 phage, Juicer. I attended the 2020 Hackathon and saw Claire's excellent post in this forum about doing it in PECAAN, but I think I have two possible candidates for the join and would appreciate suggestions. I have screengrabs of the two regions along with the GM output in the attached document. I'm thinking the join should be 10397 OR 10367. Both are -1 and have listed slippery sequences around a Glycine. Should I be trying to BLAST the protein sequence with a related phage (Chepli)? |
921Kb| Link to this post | posted 12 Mar, 2021 07:45 | |
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Here's the other phage: Gordonia GiKK cluster CT. I'm just not getting the frameshift yet. |
| Link to this post | posted 12 Mar, 2021 15:21 | |
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Here is how I would call Juicer's frameshift. I use the six-frame translation in DNA Master to find the slippery sequence. I'll look at GiKK next. debbie |
| Link to this post | posted 12 Mar, 2021 15:36 | |
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Here is how I would call GiKK's frameshift. |
| Link to this post | posted 01 Apr, 2021 20:36 | |
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Thank you Debbie!!!!! |