Plant Editosome Database
a curated database of RNA editosome in plants

EMP5 - Plant Editosome Database - BIG Data Center
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Summary

Editing Factor: EMP5
Synonym: Empty Pericarp5
Description: Encodes a pentatricopeptide repeat protein required for mitochondrial RNA editing and seed development.
Protein Family: PPR
Subclass: DYW
Construct Structure: PLS-E-E+-DYW
Gene ID & Species: LOC_Os01g72930 (Oryza sativa)
ZEAMMB73_Zm00001d042039 (Zea mays subsp. mays)
Edited Gene(s): rpl16    nad9    cox3    rps12    atp6    nad1    cob
Editing Type(s): C-to-U (52)
Publication(s): [1] Empty pericarp5 encodes a pentatricopeptide repeat protein that is required for mitochondrial RNA editing and seed development in maize, The Plant Cell, 2013. [PMID=23463776]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Oryza sativa LOC_Os01g72930 Mitochondrion rpl16 458 CDS C-to-U CUA=>CCA L=>P Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NipponbareOsEmp5-RNAi transgenic lines 19RNAiRNAi vector, pTCK303-OsEmp5, is introduced into the wild-type cultivar Nipponbare using Agrobacterium-mediated transformationEmp5 expression level was significantly decreasedThe transgenic plants grew much slower than the wild type at seedling stage. But after the seedling stage, the plants gradually recovered and grew to normal adult plantsLeafNADirect Sequencing of PCR ProductsNALowDecreased23463776
NipponbareOsEmp5-RNAi transgenic lines 23RNAiRNAi vector, pTCK303-OsEmp5, is introduced into the wild-type cultivar Nipponbare using Agrobacterium-mediated transformationEmp5 expression level was significantly decreasedThe transgenic plants grew much slower than the wild type at seedling stage. But after the seedling stage, the plants gradually recovered and grew to normal adult plantsLeafNADirect Sequencing of PCR ProductsNAMediumDecreased23463776
NipponbareOsEmp5-RNAi transgenic lines 33RNAiRNAi vector, pTCK303-OsEmp5, is introduced into the wild-type cultivar Nipponbare using Agrobacterium-mediated transformationEmp5 expression level was slightly decreasedThe transgenic plants grew much slower than the wild type at seedling stage. But after the seedling stage, the plants gradually recovered and grew to normal adult plantsLeafNADirect Sequencing of PCR ProductsNAMediumDecreased23463776
NipponbareWTNo treatmentNo treatmentNo treatmentNo treatmentLeafNADirect Sequencing of PCR Products100.00%CompleteNone23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion atp6 953 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAMediumNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAHighIncreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion cob 1098 CDS C-to-U UUC=>UUU F=>F Synonymous
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAMediumNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAHighIncreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion cox3 245 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR Products100.00%CompleteNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAHighDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion cox3 257 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR Products100.00%CompleteNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAHighDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion nad1 536 CDS C-to-U UUC=>UUU F=>F Synonymous
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAMediumNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAMediumIncreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion nad1 832 CDS C-to-U CUA=>UUA L=>L Synonymous
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAPoorNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAHighIncreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion nad9 190 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAHighNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAMediumDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNAHighDecreased23463776
W22WTNo treatmentNo treatmentNo treatmentNo treatmentLeafNADirect Sequencing of PCR Products100.00%CompleteNone23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion nad9 356 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAHighNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNALowDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion rpl16 444 CDS C-to-U UCC=>UCU S=>S Synonymous
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAMediumNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAHighIncreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNAHighIncreased23463776
W22WTNo treatmentNo treatmentNo treatmentNo treatmentLeafNADirect Sequencing of PCR ProductsNAMediumNone23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion rpl16 458 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAHighNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR Products0.00%UneditedAbsent23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNAHighDecreased23463776
W22WTNo treatmentNo treatmentNo treatmentNo treatmentLeafNADirect Sequencing of PCR Products100.00%CompleteNone23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion rps12 71 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAHighNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNALowDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion rps12 196 CDS C-to-U CAC=>UCA F=>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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAHighNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNALowDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion rps12 221 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAMediumNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNAMediumDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion rps12 269 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAHighNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNALowDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Zea mays subsp. mays ZEAMMB73_Zm00001d042039 Mitochondrion rps12 284 CDS 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
W22WTNo treatmentNo treatmentNo treatmentNo treatmentKernel13 DAPDirect Sequencing of PCR ProductsNAHighNone23463776
W22emp5-1Mu2 insertionA Mu2 is inserted in the first exonHeterozygousKernels at maturity typically were small,containing a white pericarp that was often wrinkledKernel13 DAPDirect Sequencing of PCR ProductsNALowDecreased23463776
TUSC populationemp5-4Mu1 insertionA 1.4-kb Mu1 element in the middle of the E+ motif disrupts the E+ and DYW domainHomozygousA normal embryo and endospermLeafNADirect Sequencing of PCR ProductsNANASimilar23463776
Last update: Jul 2021 (version 1.0)