DEK39 - Plant Editosome Database

Species

Gene ID

Organelle

Edited Gene

Position

Region

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Zea mays subsp. mays

GRMZM2G345128

Mitochondrion

247

CDS

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
B73	dek39	EMS Mutation	A G-to-A alteration results in Trp being converted to a stop codon	Homozygous	Delayed embryogenesis and endosperm development, reduced kernel size, and seedling lethality	Endosperm	12 DAP	RNA-Seq	40.00%	Medium	Decreased	28981206
siblings of the mutant or B73	WT	No treatment	No treatment	No treatment	No treatment	Endosperm	12 DAP	RNA-Seq	80.00%	High	None	28981206
B73	dek39	EMS Mutation	A G-to-A alteration results in Trp being converted to a stop codon	Homozygous	Delayed embryogenesis and endosperm development, reduced kernel size, and seedling lethality	Endosperm	12 DAP	Direct Sequencing of PCR Products	50.70%	Medium	Decreased	28981206
siblings of the mutant or B73	WT	No treatment	No treatment	No treatment	No treatment	Endosperm	12 DAP	Direct Sequencing of PCR Products	68.40%	High	None	28981206
B73	com	Complementation	dek39 + ProDek39::Dek39-MYC	Confirm presence of DEK39 transcripts	Similar growth phenotype as wild-type	Endosperm	12 DAP	Direct Sequencing of PCR Products	68.20%	High	Restored	28981206

Zea mays subsp. mays

GRMZM2G345128

Mitochondrion

275

CDS

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
B73	dek39	EMS Mutation	A G-to-A alteration results in Trp being converted to a stop codon	Homozygous	Delayed embryogenesis and endosperm development, reduced kernel size, and seedling lethality	Endosperm	12 DAP	RNA-Seq	4.40%	Poor	Decreased	28981206
siblings of the mutant or B73	WT	No treatment	No treatment	No treatment	No treatment	Endosperm	12 DAP	RNA-Seq	64.00%	High	None	28981206
B73	dek39	EMS Mutation	A G-to-A alteration results in Trp being converted to a stop codon	Homozygous	Delayed embryogenesis and endosperm development, reduced kernel size, and seedling lethality	Endosperm	12 DAP	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	28981206
siblings of the mutant or B73	WT	No treatment	No treatment	No treatment	No treatment	Endosperm	12 DAP	Direct Sequencing of PCR Products	59.60%	Medium	None	28981206
B73	com	Complementation	dek39 + ProDek39::Dek39-MYC	Confirm presence of DEK39 transcripts	Similar growth phenotype as wild-type	Endosperm	12 DAP	Direct Sequencing of PCR Products	60.30%	High	Restored	28981206

Editing Factor:	DEK39
Synonym:	Defective Kernel39
Description:	Encodes a PPR protein required for seed development in maize.
Protein Family:	PPR
Subclass:	E
Construct Structure:	PLS-E1-E2
Gene ID & Species:	GRMZM2G345128 (Zea mays subsp. mays)
Edited Gene(s):	nad3
Editing Type(s):	C-to-U (10)
Publication(s):	[1] Defective Kernel 39 encodes a PPR protein required for seed development in maize, Journal of Integrative Plant Biology, 2017. [PMID=28981206]

Plant Editosome Database
a curated database of RNA editosome in plants