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Matrix: TAIR:sen1 tRNA metabolism/cytokinesis #2443

Closed ValWood closed 4 years ago

ValWood commented 5 years ago

These are annotated to zygote asymmetric cytokinesis in embryo sac representing that they are embryonic lethal. I only ready the abstract but this doesn' seem like quite the right term...clearly they don't do the first division, but this is due to problems upstream of division?

SEN1 | AT3G45590 |   | zygote asymmetric cytokinesis in embryo sac |   | TAIR | Arabidopsis thaliana | IGI | AGI_LocusCode:AT5G60230 |   | protein | TAIR:locus:2085687 | PMID:28631407TAIR:Publication:501775989 | 20170715

  | SEN2 | AT5G60230 |   | zygote asymmetric cytokinesis in embryo sac |   | TAIR | Arabidopsis thaliana | IGI | AGI_LocusCode:AT3G45590 |   | protein | TAIR:locus:2144060 | PMID:28631407TAIR:Publication:501775989 | 20170715     | RNL | AT1G07910 |   | zygote asymmetric cytokinesis in embryo sac |   | TAIR | Arabidopsis thaliana | IMP |   |   | protein | TAIR:locus:2205085 | PMID:28631407TAIR:Publication:501775989 | 20170715

tberardini commented 5 years ago

You're suggesting removing the 'zygote asymmetric cytokinesis in embryo sac' annotations for SEN1, SEN2, and RNL and replacing with something like 'tRNA splicing' instead? Capturing the mutant phenotype directly as a phenotype?

tberardini commented 5 years ago

Internal links for my reference only: (won't work for outside TAIR) https://pubsearch.arabidopsis.org/pdfs/86264.pdf https://pubsearch.arabidopsis.org/Display?acc=term:112765

ValWood commented 5 years ago

Yep, Sen1 is involved in RNA 3' end processing Sen2 is a tRNA splicing endonuclease RNL is a tRNA ligase

'zygote asymmetric cytokinesis in embryo sac' would be quite indirect since these are all required generally for normal proliferation in all cells.

TAIR:AnalysisReference:501756966

lreiser commented 4 years ago

@tberardini annotations to 'zygote asymmetric cytokinesis in embryo sac' have been obsoleted for these three loci. All have linked phenotypes. AT1G07910 (RNL)
AT3G45590 (SEN1)
AT5G60230 (SEN2)