Plant Editosome Database
a curated database of RNA editosome in plants

HEMC - Plant Editosome Database - BIG Data Center
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Summary

Editing Factor: HEMC
Synonym: HYDROXYMETHYLBILANE SYNTHASE, RUG1, RUGOSA 1
Description: Encodes a protein with porphobilinogen deaminase activity. This protein is targeted to the chloroplast. Mutants spontaneously develop chlorotic leaf lesions in the absence of pathogen attack, resembling the phenotype of lesion-mimic mutants. It has been shown to interact with the PPR protein AtECB2 for chloroplast RNA editing.
Protein Family: Porphobilinogen Deaminase
Subclass: NA
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. [PMID=28850756]

Editing Details

Species Gene ID Organelle Edited Gene Position Region 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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products30.00%LowDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products100.00%CompleteNone28850756
Arabidopsis thaliana AT5G08280 Chloroplast accD 1568 3'UTR C-to-U NA=>NA NA=>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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products75.00%HighDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products85.00%HighNone28850756
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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products85.00%HighDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products95.00%HighNone28850756
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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products75.00%HighDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products85.00%HighNone28850756
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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products80.00%HighDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products90.00%HighNone28850756
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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products90.00%HighDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products95.00%HighNone28850756
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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products70.00%HighDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products100.00%CompleteNone28850756
Arabidopsis thaliana AT5G08280 Chloroplast petL 5 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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products75.00%HighDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products85.00%HighNone28850756
Arabidopsis thaliana AT5G08280 Chloroplast rpl23 89 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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products32.00%LowDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products50.00%MediumNone28850756
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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products85.00%HighDecreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products90.00%HighNone28850756
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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products42.00%MediumIncreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products22.00%LowNone28850756
Arabidopsis thaliana AT5G08280 Chloroplast rps12 58 Intronic C-to-U NA=>NA NA=>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_021519hemc-1T-DNA InsertionT-DNA is inserted in the 5'UTRHomozygous; Very little HEMC transcript was detectedHomozygous hemc-1 plants exhibited albino cotyledons with no primary true leaves when grown in soil under standard conditionsNANADirect Sequencing of PCR Products45.00%MediumIncreased28850756
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products40.00%MediumNone28850756
Last update: Jul 2021 (version 1.0)