YS6 - Plant Editosome Database - CNCB-NGDC

YS6 - Plant Editosome Database - CNCB-NGDC

Summary

Editing Factor:	YS6
Synonym:	OsYS6
Description:	The splicing of two group II introns (ycf3-intron 1 and petB intron) and the RNA editing of the ycf3-185 site; Biosynthesis of photosystem I (PSI) and cytochrome b6f complexes in rice and ultimately influencing the growth of rice seedlings
Protein Family:	Pentatricopeptide repeat (PPR)
Subclass:	P
Physical Interaction:	NA
Construct Structure:	P
Gene ID & Species:	XM_015785517 (Oryza sativa)
Edited Gene(s):	ycf3
Editing Type(s):	C-to-U (3)
Publication(s):	[1] P-type pentatricopeptide repeat protein OsYS6 is essential for chloroplast development in rice through its role in chloroplast RNA processing, Molecular Breeding, 2025. [PMID=41425081]

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

Oryza sativa

XM_015785517

Chloroplast

185

CDS

NA

NA

NA

NA

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
Oryza sativa L. ssp. japonica cv. Dongjin	WT	Wild type	No treatment	No mutant	Normal	Seedling	Two-leaf stage	The PCR product amplified from the cDNA obtained by reverse	100.00%	Complete	None	41425081
PFG_3A-18,029	osys6	A T-DNA insertion	The T-DNA sequence was inserted into the second exon, which was 1278bp downstream of the rice gene LOC_Os06g02120 start codon	Homozygous; Knockout	The seedling yellowing and lethal phenotypes; The chloroplasts of WT featured well-structured, continuous grana thylakoid membrane layers, whereas those of the osys6 mutant showed disorganized, fragmented, and much fewer chloroplast grana thylakoid membranes	Seedling	Two-leaf stage	The PCR product amplified from the cDNA obtained by reverse	20.00%	Low	Decreased	41425081
NA	Com	Complementation	The full-length OsYS6 genomic sequence from initiation codon to stop codon in total 3839 kb along with its 2 kb downstream sequence and the approximately 800 bp upstream sequence were cloned and ligat	Homozygous	The pale-yellow leaf phenotype and chlorophyll deficiency were rescued in the complemented lines	Seedling	Two-leaf stage	The PCR product amplified from the cDNA obtained by reverse	100.00%	Complete	Restored	41425081

Last update: Feb 2026 (version 2.0)