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Recent Activity
All posts created by dmonti
| Link to this post | posted 25 Feb, 2016 05:35 | |
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Hi Lee - Thanks for the response. We are even struggling to find a tapemeasure gene but the good news is we finally did locate a terminase gene today! Unfortunately though, some questions remain. I know Welkin was using the terminase gene to determine a start position for a circularly permutated genome. The position of our terminase is at the end of a long string of forward genes with a few reverse genes sprinkled here and there. I am struggling to determine where I should assign position 1 in the genome. Should I 'ignore' the reverse genes for now and assign position 1 at the beginning of the forward genes, or take a different approach and assign position 1 at the short string of forward genes that immediately follows the first tiny reverse gene. Any advice is greatly appreciated! Denise |
Posted in: Annotation → Locating Terminase Gene
| Link to this post | posted 24 Feb, 2016 21:12 | |
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Hi Folks - We are attempting to create a final FASTA file for one of our recently sequenced phage and need to locate the terminase to know where to assign position 1 of the genome. After many BLAST searches and a few HHPred searches of nearly every protein with a typical terminase size, I am coming up empty-handed. Are there any other tricks or tips that you can share regarding locating the terminase? We have also tried running a dotplot comparison with other Acinetobacter phage and nothing seems to match. Many thanks for any assistance you can offer! Best, Denise |
Posted in: Annotation → Locating Terminase Gene