Plant Editosome Database
a curated database of RNA editosome in plants

COD1 - Plant Editosome Database - BIG Data Center
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Summary

Editing Factor: COD1
Synonym: CYTOCHROME C OXIDASE DEFICIENT 1
Description: Pentatricopeptide repeat (PPR) superfamily protein;(source:Araport11)
Protein Family: PPR
Subclass: E+
Construct Structure: PLS-E-E+
Gene ID & Species: At2g35030 (Arabidopsis thaliana)
Edited Gene(s): cox2    nad4
Editing Type(s): C-to-U (21)
Publication(s): [1] The Analysis of the Editing Defects in the dyw2 Mutant Provides New Clues for the Prediction of RNA Targets of Arabidopsis E+-Class PPR Proteins, Plants (Basel), 2020. [PMID=32098170]
[2] Multiple PPR Protein Interactions Are Involved in the RNA Editing System in Arabidopsis Mitochondria and Plastids, Proc Natl Acad Sci U S A, 2017. [PMID=28761003]
[3] Disruption of the CYTOCHROME C OXIDASE DEFICIENT1 gene leads to cytochrome c oxidase depletion and reorchestrated respiratory metabolism in Arabidopsis, Plant Physiol, 2014. [PMID=25301889]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Arabidopsis thaliana At2g35030 Mitochondrion cox2 253 CDS C-to-U CGG=>UGG
NA=>NA		 R=>W
NA=>NA		 Recoding
NA
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
Col-0Col-0No treatment No treatmentNo treatmentNormalSeedling3 to 4 weeksDirect Sequencing of PCR Products, and compared to the Arabi100.00%CompleteNone25301889
SALK_000882cod1-1T-DNA insertionA T-DNA insertion is mapped within the COD1 gene coding sequence, precisely 1,707(cod1-1) nucleotides downstream of the start codonHeterozygousSmaller size of the embryo; Retarded and very slow growth of the seedSeedling2 to 3 months Direct Sequencing of PCR Products, and compared to the Arabi0.00%UneditedAbsent25301889
SALK_615308cod1-2T-DNA insertionA T-DNA insertion is mapped within the COD1 gene coding sequence, precisely 990(cod1-2) nucleotides downstream of the start codonHeterozygousSmaller size of the embryo; Retarded and very slow growth of the seedSeedling2 to 3 months Direct Sequencing of PCR Products, and compared to the Arabi0.00%UneditedAbsent25301889
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq98.22%HighNone32098170
Col-0WTNo treatmentNo treatmentNo treatmentNormalRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract100.00%CompleteNone28761003
Col-0DYW2-GFP-OE1Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract57.00%MediumDecreased28761003
Col-0DYW2-GFP-OE2Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract53.00%MediumDecreased28761003
Arabidopsis thaliana At2g35030 Mitochondrion cox2 698 CDS C-to-U ACG=>AUG
NA=>NA		 T=>M
NA=>NA		 Recoding
NA
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
Col-0Col-0No treatment No treatmentNo treatmentNormalSeedling3 to 4 weeksDirect Sequencing of PCR Products, and compared to the Arabi100.00%CompleteNone25301889
SALK_000882cod1-1T-DNA insertionA T-DNA insertion is mapped within the COD1 gene coding sequence, precisely 1,707(cod1-1) nucleotides downstream of the start codonHeterozygousSmaller size of the embryo; Retarded and very slow growth of the seedSeedling2 to 3 months Direct Sequencing of PCR Products, and compared to the Arabi0.00%UneditedAbsent25301889
SALK_615308cod1-2T-DNA insertionA T-DNA insertion is mapped within the COD1 gene coding sequence, precisely 990(cod1-2) nucleotides downstream of the start codonHeterozygousSmaller size of the embryo; Retarded and very slow growth of the seedSeedling2 to 3 months Direct Sequencing of PCR Products, and compared to the Arabi0.00%UneditedAbsent25301889
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq99.58%HighNone32098170
Col-0WTNo treatmentNo treatmentNo treatmentNormalRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract100.00%CompleteNone28761003
Col-0DYW2-GFP-OE1Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract88.00%HighDecreased28761003
Col-0DYW2-GFP-OE2Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract93.00%HighSimilar28761003
Arabidopsis thaliana At2g35030 Mitochondrion nad4 1129 CDS C-to-U CUC=>UUC
NA=>NA		 L=>F
NA=>NA		 Recoding
NA
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
Col-0Col-0No treatment No treatmentNo treatmentNormalSeedling3 to 4 weeksDirect Sequencing of PCR Products, and compared to the Arabi100.00%CompleteNone25301889
SALK_000882cod1-1T-DNA insertionA T-DNA insertion is mapped within the COD1 gene coding sequence, precisely 1,707(cod1-1) nucleotides downstream of the start codonHeterozygousSmaller size of the embryo; Retarded and very slow growth of the seedSeedling2 to 3 months Direct Sequencing of PCR Products, and compared to the Arabi0.00%UneditedAbsent25301889
SALK_615308cod1-2T-DNA insertionA T-DNA insertion is mapped within the COD1 gene coding sequence, precisely 990(cod1-2) nucleotides downstream of the start codonHeterozygousSmaller size of the embryo; Retarded and very slow growth of the seedSeedling2 to 3 months Direct Sequencing of PCR Products, and compared to the Arabi0.00%UneditedAbsent25301889
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq99.89%HighNone32098170
Col-0WTNo treatmentNo treatmentNo treatmentNormalRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract100.00%CompleteNone28761003
Col-0DYW2-GFP-OE1Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract83.00%HighDecreased28761003
Col-0DYW2-GFP-OE2Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract86.00%HighDecreased28761003
Last update: Jul 2021 (version 1.0)