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All posts created by nietof

| posted 27 Apr, 2021 14:56
Debbie
I will check that out!
In the meantime I went to pecaan to look at the six frames.
thank you
Fernando
Posted in: DNA MasterScroll bar in six frame translation
| posted 27 Apr, 2021 03:14
Hi everyone
All of the sudden the scrolling bar in the six frame translation window is gone. THe rest of the components of the ribbon at the bottom are there, but I can't scroll through the sequence. I attached a picture of the window. I uninstalled and reinstalled DNA Master and it still happening. I am running on a PC with windows 10.
thank you
Fernando
Posted in: DNA MasterScroll bar in six frame translation
| posted 20 Feb, 2021 00:03
debbie
I do not think that this protein (gene35 of Sarma624) has a reportable function. HHPred has no hits to an applicable function.
Debbie
thanks for confirming.
regards
F
Posted in: Functional AnnotationPLA2-like domain in Cluster B1s
| posted 20 Feb, 2021 00:03
debbie
I do not think that this protein (gene35 of Sarma624) has a reportable function. HHPred has no hits to an applicable function.
Debbie
thanks for confirming.
regards
F
Posted in: Functional AnnotationPLA2-like domain in Cluster B1s
| posted 20 Feb, 2021 00:02
debbie
I do not think that this protein (gene35 of Sarma624) has a reportable function. HHPred has no hits to an applicable function.
Debbie
thanks for confirming.
regards
F
Posted in: Functional AnnotationPLA2-like domain in Cluster B1s
| posted 19 Feb, 2021 23:39
Hey
Retaking this thread. We are annotating Sarma624. Gene 35 blasted in phagesdb gets two hits with a PLA2-like protein domain function, Bigphil_35 and Mozy_42. It is a phospholipase A2 It doesn't appear in the list of accepted functions yet. Most of the other F1 phages have NKF for the same gene. The HHPred hits are all human actin binding protein or other not close to a phospholipase. I would be inclined to think BigPhil and Mozy's annotations are incorrect and thus to call it NKF for Sarma.
Posted in: Functional AnnotationPLA2-like domain in Cluster B1s
| posted 19 Feb, 2021 23:38
Hey
Retaking this thread. We are annotating Sarma624. Gene 35 blasted in phagesdb gets two hits with a PLA2-like protein domain function, Bigphil_35 and Mozy_42. It is a phospholipase A2 It doesn't appear in the list of accepted functions yet. Most of the other F1 phages have NKF for the same gene. The HHPred hits are all human actin binding protein or other not close to a phospholipase. I would be inclined to think BigPhil and Mozy's annotations are incorrect and thus to call it NKF for Sarma.
Posted in: Functional AnnotationPLA2-like domain in Cluster B1s
| posted 05 Jan, 2021 15:07
Debbie
Thank you, I will try that, and Happy New Year!!!
F
Posted in: DNA MasterDNAMaster BLAST failure
| posted 05 Jan, 2021 12:38
I am running DMA Master in windows 10. Set it up all preferences according to latest instructions. I am able to autoannotate my genome. I ran the BLAST all genes overnight and it doesn't complete. DNA Master becomes unresponsive and the only way to get out is by ending it using task manager. This is the first time I am running DNA Master in windows 10 and it is a brand new laptop. Thank you
Fernando
Posted in: DNA MasterDNAMaster BLAST failure
| posted 09 May, 2020 20:52
Hi Dan
THank you. Trust all is well with you the UPitt folks and your families.
Best
F
Posted in: General Message BoardActinobacteriophage database in Phagesdb