Plant Editosome Database
a curated database of RNA editosome in plants

PDM2 - Plant Editosome Database - BIG Data Center
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Summary

Editing Factor: PDM2
Synonym: EMB3103, EMBRYO DEFECTIVE 3103, PENTRATRICOPEPTIDE REPEAT PROTEIN PIGMENT-DEFECTIVE MUTANT2
Description: Encodes a pentatricopeptide repeat protein that belongs to the P subgroup which affects plastid RNA editing efficiency in most editing sites. PDM2 is probably involved in the regulation of plastid gene expression and normal chloroplast development.
Protein Family: PPR
Subclass: P
Construct Structure: P
Gene ID & Species: AT1G10910 (Arabidopsis thaliana)
Edited Gene(s): ndhB    ndhD    ndhF    ndhG    accD
Editing Type(s): C-to-U (16)
Publication(s): [1] The Pentratricopeptide Repeat Protein Pigment-Defective Mutant2 is Involved in the Regulation of Chloroplast Development and Chloroplast Gene Expression in Arabidopsis, Plant & Cell Physiology, 2017. [PMID=28158776]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Arabidopsis thaliana AT1G10910 Chloroplast accD 794 CDS C-to-U UCG=>UUG S=>L Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NARNAi 4RNAiNAKnockdownWhite cotyledons and stunted plant growth developed true leaves and showed a variegated pattern when grown in sucrose-supplemented mediumNANADirect Sequencing of PCR Products23.00%LowDecreased28158776
NAWTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products95.00%HighNone28158776
Arabidopsis thaliana AT1G10910 Chloroplast accD 58642 3'UTR C-to-U NA=>NA NA=>NA NA
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NARNAi 4RNAiNAKnockdownWhite cotyledons and stunted plant growth developed true leaves and showed a variegated pattern when grown in sucrose-supplemented mediumNANADirect Sequencing of PCR Products11.00%PoorDecreased28158776
NAWTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products80.00%HighNone28158776
Arabidopsis thaliana AT1G10910 Chloroplast ndhB 586 CDS C-to-U CAU=>UAU H=>Y Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NARNAi 4RNAiNAKnockdownWhite cotyledons and stunted plant growth developed true leaves and showed a variegated pattern when grown in sucrose-supplemented mediumNANADirect Sequencing of PCR Products25.00%LowDecreased28158776
NAWTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products82.00%HighNone28158776
Arabidopsis thaliana AT1G10910 Chloroplast ndhB 830 CDS C-to-U UCA=>UUA S=>L Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NARNAi 4RNAiNAKnockdownWhite cotyledons and stunted plant growth developed true leaves and showed a variegated pattern when grown in sucrose-supplemented mediumNANADirect Sequencing of PCR Products24.00%LowDecreased28158776
NAWTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products93.00%HighNone28158776
Arabidopsis thaliana AT1G10910 Chloroplast ndhD 2 CDS C-to-U ACG=>AUG T=>M Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NARNAi 4RNAiNAKnockdownWhite cotyledons and stunted plant growth developed true leaves and showed a variegated pattern when grown in sucrose-supplemented mediumNANADirect Sequencing of PCR Products7.00%PoorDecreased28158776
NAWTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products53.00%HighNone28158776
Arabidopsis thaliana AT1G10910 Chloroplast ndhD 383 CDS C-to-U UCA=>UUA S=>L Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NARNAi 4RNAiNAKnockdownWhite cotyledons and stunted plant growth developed true leaves and showed a variegated pattern when grown in sucrose-supplemented mediumNANADirect Sequencing of PCR Products55.00%MediumDecreased28158776
NAWTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products100.00%HighNone28158776
Arabidopsis thaliana AT1G10910 Chloroplast ndhF 290 CDS C-to-U UCA=>UUA S=>L Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NARNAi 4RNAiNAKnockdownWhite cotyledons and stunted plant growth developed true leaves and showed a variegated pattern when grown in sucrose-supplemented mediumNANADirect Sequencing of PCR Products20.00%LowDecreased28158776
NAWTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products95.00%HighNone28158776
Arabidopsis thaliana AT1G10910 Chloroplast ndhG 50 CDS C-to-U UCC=>UUC 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
NARNAi 4RNAiNAKnockdownWhite cotyledons and stunted plant growth developed true leaves and showed a variegated pattern when grown in sucrose-supplemented mediumNANADirect Sequencing of PCR Products39.00%LowDecreased28158776
NAWTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products78.00%HighNone28158776
Last update: Jul 2021 (version 1.0)