WPR - Plant Editosome Database

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Nuclear Genome

Organelle Genome

Other Region

Other Position

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Oryza sativa

LOC_Os02g02590

Chloroplast

ndhA

MSU v.7.0

Transcript

1070

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	79.73%	High	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	37.88%	Low	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	73.68%	High	Similar	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	66.67%	High	Decreased	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	45.45%	Medium	Decreased	41130265

Oryza sativa

LOC_Os02g02590

Chloroplast

ndhA

MSU v.7.0

Transcript

473

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	100.00%	Complete	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	31.82%	Low	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	82.98%	High	Decreased	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	61.54%	High	Decreased	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	57.45%	Medium	Decreased	41130265

Oryza sativa

LOC_Os02g02590

Chloroplast

ndhB

MSU v.7.0

Transcript

1481

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	86.00%	High	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	61.00%	High	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	86.00%	High	Similar	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	79.00%	High	Similar	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	81.00%	High	Similar	41130265

Oryza sativa

LOC_Os02g02590

Chloroplast

ndhB

MSU v.7.0

Transcript

611

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	100.00%	Complete	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	50.00%	Medium	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	100.00%	Complete	Similar	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	90.14%	High	Similar	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	82.00%	High	Decreased	41130265

Oryza sativa

LOC_Os02g02590

Chloroplast

ndhB

MSU v.7.0

Transcript

737

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	69.00%	High	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	35.00%	Low	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	100.00%	Complete	Increased	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	87.00%	High	Increased	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	87.00%	High	Increased	41130265

Oryza sativa

LOC_Os02g02590

Chloroplast

ndhD

MSU v.7.0

Transcript

878

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	83.00%	High	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	63.00%	High	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	91.00%	High	Similar	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	84.00%	High	Similar	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	83.00%	High	Similar	41130265

Oryza sativa

LOC_Os02g02590

Chloroplast

ndhG

MSU v.7.0

Transcript

-11

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	84.00%	High	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	45.00%	Medium	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	82.00%	High	Similar	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	66.00%	High	Decreased	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	53.00%	Medium	Decreased	41130265

Oryza sativa

LOC_Os02g02590

Chloroplast

rps14

MSU v.7.0

Transcript

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	85.00%	High	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	22.00%	Low	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	100.00%	Complete	Increased	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	83.00%	High	Similar	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	81.00%	High	Similar	41130265

Oryza sativa

LOC_Os02g02590

Chloroplast

ycf3

MSU v.7.0

Transcript

182

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
Nipponbare	WT	Control	Control	No mutant	Normal	Seedling	NA	PCR products were directly sequenced	76.00%	High	None	41130265
Nipponbare	cr-wpr-1	A 1-nucleotide insertion	NA	Homozygous; Knockout	A severe albino phenotype even at the seedling stage	Seedling	NA	PCR products were directly sequenced	33.00%	Low	Decreased	41130265
Huanghuazhan	HHZ	Control	Control	No mutant	Normal	Rachis	NA	PCR products were directly sequenced	65.00%	High	Decreased	41130265
Huanghuazhan	NIL-wpr	A near isogenic line	NA	No mutant	Yellow-green flag leaf sheath and white panicle rachis during heading; Transpiration rate, net photosynthesis rate, and stomatal conductance were not significantly compromised compared to that of wild-type HHZ; The yield-related agronomic traits, including plant height, number of panicles per plant, grain number per panicle, the seed-setting rate, and grain yield per plant, all showed insignificantly different results between NIL-wpr and HHZ plants	Rachis	NA	PCR products were directly sequenced	58.00%	Medium	Decreased	41130265
IRIS_313-11 713/IRGC 127445	wpr	A inbred line	The wpr inbred line used in this study (IRIS_313-11 713/IRGC 127445) was selected from 3 K rice germplasms collection and collected from Nigeria	No mutant	Higher plant height and fewer tillers and was genetically classified into intermediate rice type; The flag leaf sheath (FLS) of wpr was yellow-green before heading, while panicle rachis (PR) was white in wpr during the heading stage	Rachis	NA	PCR products were directly sequenced	46.00%	Medium	Decreased	41130265

Editing Factor:	WPR
Synonym:	White Panicle Rachis
Description:	Chloroplast RNA maturation; Chloroplast RNA splicing and editing
Protein Family:	Pentatricopeptide repeat (PPR) protein
Subclass:	P
Physical Interaction:	MORF1; MORF8b; CAF2
Construct Structure:	P
Gene ID & Species:	LOC_Os02g02590 (Oryza sativa)
Edited Gene(s):	ndhA ndhB ndhD ndhG rps14 ycf3
Editing Type(s):	C-to-U (45)
Publication(s):	[1] A six-repeat PPR protein WPR directly binds target RNAs and coordinates chloroplast RNA processing via dual recruitment of MORF1, MORF8b, and CAF2 proteins in rice, The Plant Journal, 2025. [doi:10.1111/tpj.70526]

Summary

Editing Details