CP31A - Plant Editosome Database

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

Arabidopsis thaliana

AT4G24770

Chloroplast

matK

AP000423

Genomic position

2931

C-to-U

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
Columbia (Col-0)	Col-0	Control	Control	No mutant	Normal	NA	NA	Sequencing PCR products	92.00%	High	None	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	60.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	63.00%	High	Decreased	19297624

Arabidopsis thaliana

AT4G24770

Chloroplast

ndhB

AP000423

Genomic position

96698
95225

C-to-U

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
Columbia (Col-0)	Col-0	Control	Control	No mutant	Normal	NA	NA	Sequencing PCR products	94.00%	High	None	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	73.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	72.00%	High	Decreased	19297624
Columbia (Col-0)	Col-0	Control	Control	No mutant	Normal	NA	NA	Sequencing PCR products	88.00%	High	None	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	71.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	81.00%	High	Similar	19297624

Arabidopsis thaliana

AT4G24770

Chloroplast

ndhD

AP000423

Genomic position

116494
116290
116281

C-to-U

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
Columbia (Col-0)	Col-0	Control	Control	No mutant	Normal	NA	NA	Sequencing PCR products	100.00%	Complete	None	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	59.00%	Medium	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	66.00%	High	Decreased	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	67.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	68.00%	High	Decreased	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	71.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	73.00%	High	Decreased	19297624

Arabidopsis thaliana

AT4G24770

Chloroplast

ndhF

AP000423

Genomic position

112349

C-to-U

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
Columbia (Col-0)	Col-0	Control	Control	No mutant	Normal	NA	NA	Sequencing PCR products	100.00%	Complete	None	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	65.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	58.00%	Medium	Decreased	19297624

Arabidopsis thaliana

AT4G24770

Chloroplast

petL

AP000423

Genomic position

65716

C-to-U

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
Columbia (Col-0)	Col-0	Control	Control	No mutant	Normal	NA	NA	Sequencing PCR products	80.00%	High	None	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	68.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	64.00%	High	Decreased	19297624

Arabidopsis thaliana

AT4G24770

Chloroplast

psbZ

AP000423

Genomic position

35800

C-to-U

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
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	63.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	70.00%	High	Decreased	19297624

Arabidopsis thaliana

AT4G24770

Chloroplast

rpoB

AP000423

Genomic position

25992
25779
23898

C-to-U

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
Columbia (Col-0)	Col-0	Control	Control	No mutant	Normal	NA	NA	Sequencing PCR products	93.00%	High	None	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	77.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	83.00%	High	Decreased	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	50.00%	Medium	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	61.00%	High	Decreased	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	63.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	67.00%	High	Decreased	19297624

Arabidopsis thaliana

AT4G24770

Chloroplast

rps14

AP000423

Genomic position

37092

C-to-U

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
Columbia (Col-0)	Col-0	Control	Control	No mutant	Normal	NA	NA	Sequencing PCR products	100.00%	Complete	None	19297624
SALK_109613	cp31a-1	T-DNA insertion	The T-DNA in cp31a-1 plants is inserted before base pair 1530	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	67.00%	High	Decreased	19297624
SAIL_258_h02	cp31a-3	T-DNA insertion	The T-DNA in cp31a-3 plants is inserted before base pair 542	Homozygous	Not affect their macroscopic appearance relative to WT under standard growth conditions	NA	NA	Sequencing PCR products	63.00%	High	Decreased	19297624

Editing Factor:	CP31A
Synonym:	NA
Description:	The cpRNP family member CP31A exhibit highly specific and diverse defects in chloroplast RNA metabolism; Analysis of cp31a and cp31a/cp31b double mutants uncovers that these 2 paralogous genes participate nonredundantly in a combinatorial fashion in processing a subset of chloroplast editing sites in vivo; A genome-wide analysis of chloroplast transcript accumulation in cp31a mutants detected a virtually complete loss of the chloroplast ndhF mRNA and lesser reductions for specific other mRNAs; Fluorescence analyses show that the activity of the NADH dehydrogenase complex, which also includes the NdhF subunit, is defective in cp31a mutants
Protein Family:	cpRNP
Subclass:	NA
Physical Interaction:	NA
Construct Structure:	NA
Gene ID & Species:	AT4G24770 (Arabidopsis thaliana)
Edited Gene(s):	matK ndhB ndhD ndhF petL rpoB rps14 psbZ
Editing Type(s):	C-to-U (34)
Publication(s):	[1] Chloroplast ribonucleoprotein CP31A is required for editing and stability of specific chloroplast mRNAs., Proceedings of the National Academy of Sciences of the United States of America, 2009. [PMID=19297624]

Summary

Editing Details