HEMC - 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

Arabidopsis thaliana

AT5G08280

Chloroplast

accD

794

CDS

C-to-U

UCG=>UUG

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
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	30.00%	Low	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

accD

3'UTR

1568

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_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	75.00%	High	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	85.00%	High	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

clpP

559

CDS

C-to-U

CAU=>UAU

H=>Y

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	85.00%	High	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	95.00%	High	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

ndhB

467

CDS

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
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	75.00%	High	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	85.00%	High	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

ndhB

586

CDS

C-to-U

CAU=>UAU

H=>Y

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	80.00%	High	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	90.00%	High	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

ndhD

878

CDS

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
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	90.00%	High	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	95.00%	High	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

ndhF

290

CDS

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
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	70.00%	High	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

petL

CDS

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
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	75.00%	High	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	85.00%	High	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

rpl23

CDS

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
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	32.00%	Low	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	50.00%	Medium	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

rpoA

200

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
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	85.00%	High	Decreased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	90.00%	High	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

rpoC1

488

CDS

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
SALK_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	42.00%	Medium	Increased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	22.00%	Low	None	28850756

Arabidopsis thaliana

AT5G08280

Chloroplast

rps12

Intron

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_021519	hemc-1	T-DNA Insertion	T-DNA is inserted in the 5'UTR	Homozygous	Homozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditions	NA	NA	Direct Sequencing of PCR Products	45.00%	Medium	Increased	28850756
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	40.00%	Medium	None	28850756

Editing Factor:	HEMC
Synonym:	HYDROXYMETHYLBILANE SYNTHASE; RUG1; RUGOSA 1
Description:	Co-immunoprecipitation and mass spectrometry experiments showed that multiple organelle RNA editing factor 2 (MORF2) and porphobilinogen deaminase HEMC are associated with AtECB2; Biochemical analysis showed that AtECB2 directly interacts with HEMC through its E domain, while HEMC interacts with MORF8/RIP1; The hemc-1 mutant showed an albino and seedling-lethal phenotype; Of the seven editing sites affected in atecb2, the editing of accD-794 and ndhF-290 was also reduced in hemc-1; RNA immunoprecipitation analysis suggested that HEMC is associated with the editing sites of ndhF transcripts; These results showed that both HEMC and multiple organellar RNA editing factor (MORF) proteins are associated with AtECB2 for RNA editing in plastids
Protein Family:	Porphobilinogen deaminase (PBGD)
Subclass:	NA
Physical Interaction:	MORF8/RIP1
Construct Structure:	NA
Gene ID & Species:	AT5G08280 (Arabidopsis thaliana)
Edited Gene(s):	accD ndhF rpoC1 rpl23 petL rpoA clpP rps12 ndhB ndhD
Editing Type(s):	C-to-U (24)
Publication(s):	[1] Porphobilinogen deaminase HEMC interacts with the PPR-protein AtECB2 for chloroplast RNA editing, The Plant Journal, 2017. [doi:10.1111/tpj.13672]

Summary

Editing Details