PED
Plant
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PpPPR_65 - Plant Editosome Database - CNCB-NGDC
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Summary

Editing Factor: PpPPR_65
Synonym: Phypa_175641
Description: Encoding DYW subclass PPR protein as RNA editing factor for atp9 site; Knockout of DYW-PPR_65 in Physcomitrella patens causes a severe developmental phenotype in the moss and specifically affects two editing sites located 18 nucleotides apart on the mitochondrial ccmFC mRNA
Protein Family: PPR
Subclass: DYW
Physical Interaction: PPR_71; PPR_79; MORF1; MORF2
Construct Structure: PLS-E/E+-DYW
Gene ID & Species: PP1S13_264V6 (Physcomitrium patens)
Edited Gene(s): ccmFc
Editing Type(s): C-to-U (17)
Publication(s): [1] Two DYW subclass PPR proteins are involved in RNA editing of ccmFc and atp9 transcripts in the moss Physcomitrella patens: first complete set of PPR editing factors in plant mitochondria., Plant & cell physiology, 2013. [PMID=24058147]
[2] A DYW-protein knockout in Physcomitrella affects two closely spaced mitochondrial editing sites and causes a severe developmental phenotype., The Plant journal : for cell and molecular biology, 2013. [PMID=23909746]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Nuclear Genome Organelle Genome Other Position Region Other Position Editing Type Codon Amino Acid Molecular Effect Experiment Details
Physcomitrium patens PP1S13_264V6 Mitochondrion ccmFc 103 CDS NA
P.patens.V1.2_genome		 NA
NC_007945		 NA NA C-to-U CCC=>UCC P=>S Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NAWTControlControlControlNormalProtonema4 daysDirect Sequencing of PCR Products90.00%HighNone24058147
NA△65-1Gene cassetteGene cassette deletes the cognate gene by replacing the coding region with the gfp and hptKnockoutSevere growth retardation of the moss protonemataProtonema4 daysDirect Sequencing of PCR Products0.00%UneditedAbsent24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)GH line (-) (control to RNAi line)Without β-estradiolControlControlNAProtonema4 daysDirect Sequencing of PCR Products90.00%HighNone24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)GH line (+) (control to RNAi line)With β-estradiolProtonemata are cultured for 4 d in the presence of 1 mM β-estradiolControlNAProtonema4 daysDirect Sequencing of PCR Products90.00%HighNone24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)65RNAi#5 (-)RNAi without β-estradiolpMI-65RNAi is introduced into protonemata of GH line by particle bombardmentKnockdownNAProtonema4 daysDirect Sequencing of PCR Products70.00%HighDecreased24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)65RNAi#16 (-)RNAi without β-estradiolpMI-65RNAi is introduced into protonemata of GH line by particle bombardmentKnockdownNAProtonema4 daysDirect Sequencing of PCR Products70.00%HighDecreased24058147
NAWTControlControlControlNormalNANADirect Sequencing of PCR ProductsNAHighNone23909746
NAKO_PPR_65Gene cassetteHomologous recombination is used to insert the selectable nptII marker cassette into PPR_65 upon protoplast transformationKnockoutSevere growth retardationNANADirect Sequencing of PCR Products0.00%UneditedAbsent23909746
Physcomitrium patens PP1S13_264V6 Mitochondrion ccmFc 122 CDS NA
P.patens.V1.2_genome		 NA
NC_007945		 NA NA C-to-U UCU=>UUU S=>F Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NAWTControlControlControlNormalProtonema4 daysDirect Sequencing of PCR Products80.00%HighNone24058147
NA△65-1Gene cassetteGene cassette deletes the cognate gene by replacing the coding region with the gfp and hptKnockoutSevere growth retardation of the moss protonemataProtonema4 daysDirect Sequencing of PCR Products0.00%UneditedAbsent24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)GH line (+) (control to RNAi line)With β-estradiolProtonemata are cultured for 4 d in the presence of 1 mM β-estradiolControlNAProtonema4 daysDirect Sequencing of PCR Products80.00%HighNone24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)65RNAi#5 (-)RNAi without β-estradiolpMI-65RNAi is introduced into protonemata of GH line by particle bombardmentKnockdownNAProtonema4 daysDirect Sequencing of PCR Products70.00%HighDecreased24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)65RNAi#16 (-)RNAi without β-estradiolpMI-65RNAi is introduced into protonemata of GH line by particle bombardmentKnockdownNAProtonema4 daysDirect Sequencing of PCR Products70.00%HighDecreased24058147
NAWTControlControlControlNormalNANADirect Sequencing of PCR Products100.00%CompleteNone23909746
NAKO_PPR_65Gene cassetteHomologous recombination is used to insert the selectable nptII marker cassette into PPR_65 upon protoplast transformationKnockoutSevere growth retardationNANADirect Sequencing of PCR Products0.00%UneditedAbsent23909746
NAKO_PPR_65Gene cassetteHomologous recombination is used to insert the selectable nptII marker cassette into PPR_65 upon protoplast transformationKnockoutSevere growth retardationNANAPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent23909746
NAKO_PPR_65Gene cassetteHomologous recombination is used to insert the selectable nptII marker cassette into PPR_65 upon protoplast transformationKnockoutSevere growth retardationNANAPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent23909746
Last update: Feb 2026 (version 2.0)