DEK48 - 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

Zea mays

GRMZM2G017197

Mitochondrion

nad3

146

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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	82.35%	High	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	29.03%	Low	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	44.44%	Medium	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	45.71%	Medium	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

185

C-to-U

CCG=>CUG

P=>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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	100.00%	Complete	None	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

190

C-to-U

CCU=>UCU

P=>S

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	87.80%	High	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	46.90%	Medium	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	47.86%	Medium	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	61.08%	High	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

208

C-to-U

CUU=>UUU

L=>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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	78.43%	High	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	25.68%	Low	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	42.86%	Medium	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	43.23%	Medium	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

209

C-to-U

CCU/UCU=>CUU/UUU

P/L=>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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	100.00%	Complete	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	44.79%	Medium	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	66.91%	High	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	69.94%	High	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

215

C-to-U

CCG=>CUG

P=>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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	100.00%	Complete	None	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

230

C-to-U

UCU=>UUU

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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	64.71%	High	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	20.98%	Low	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	31.76%	Low	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	31.09%	Low	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

247

C-to-U

CCU=>UCU

P=>S

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	75.18%	High	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	25.00%	Low	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	39.73%	Low	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	49.11%	Medium	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

251

C-to-U

CCU=>CUU

P=>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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	65.89%	High	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	20.29%	Low	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	31.34%	Low	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	33.33%	Low	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

275

C-to-U

UCU=>UUU

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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	65.28%	High	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	0.00%	Unedited	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	32.87%	Low	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	32.07%	Low	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad3

317

C-to-U

UCU=>UUU

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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	100.00%	Complete	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	47.10%	Medium	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	71.62%	High	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	72.13%	High	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad4

376

C-to-U

CGU=>UGU

R=>C

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	100.00%	Complete	None	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad4

977

C-to-U

CCG=>CUG

P=>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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	100.00%	Complete	None	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad9

311

C-to-U

CCA=>CUA

P=>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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	100.00%	Complete	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	68.75%	High	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	62.96%	High	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	67.07%	High	Decreased	35328485

Zea mays

GRMZM2G017197

Mitochondrion

nad9

398

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
NA	WT	Control	Control	No mutant	Normal	Kernel	12 DAP	Sequencing of RT-PCR fragments	100.00%	Complete	None	35328485
UFMu-06548	dek48-1	Mu insertion	The Mutator (Mu) insertional mutant (dek48-1) was isolated from the UniformMu population.	Recessive; Heterozygous	Kernels are smaller at maturity; the embryo and endosperm development were severely defective.	Kernel	12 DAP	Sequencing of RT-PCR fragments	63.83%	High	Decreased	35328485
EMS3-024001	dek48-2	EMS mutagenization	Causing a mutation of C-to-T at +784 bp, resulting in a stop codon (from CAA to TAA) that leads to a truncation of 605 amino acid residues in the C-terminus of DEK48.	Recessive; Heterozygous	Defective kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	60.45%	High	Decreased	35328485
EMS3-0b2fab	dek48-3	EMS mutagenization	Leading to a mutation of G-to-A at + 2595 bp, causing a stop codon (TGG to TGA) that generates a loss of only the last tryptophan (W) residue in the DYW triplet of DEK48.	Recessive; Heterozygous	Small kernel	Kernel	12 DAP	Sequencing of RT-PCR fragments	58.19%	Medium	Decreased	35328485

Editing Factor:	DEK48
Synonym:	Defective Kernel 48
Description:	DEK48 loss of function abolishes the C-to-U editing at nad3-185, -215, and nad4-376, -977 sites and decreases the editing at 11 other sites, resulting in the alteration of the corresponding amino acids; Consequently, the absence of editing caused reduced assembly and activity of complex I in dek48
Protein Family:	PPR
Subclass:	DYW
Physical Interaction:	NA
Construct Structure:	PLS-E1-E2-E+-DYW
Gene ID & Species:	GRMZM2G017197 (Zea mays)
Edited Gene(s):	nad3 nad4 nad9
Editing Type(s):	C-to-U (48)
Publication(s):	[1] DEK48 Is Required for RNA Editing at Multiple Mitochondrial Sites and Seed Development in Maize., International journal of molecular sciences, 2022. [PMID=35328485]

Summary

Editing Details