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    EMB2279 pentatricopeptide (PPR) repeat-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 839941, updated on 18-Sep-2024

    Summary

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    Official Symbol
    EMB2279
    Official Full Name
    pentatricopeptide (PPR) repeat-containing protein
    Primary source
    TAIR:AT1G30610
    Locus tag
    AT1G30610
    See related
    Araport:AT1G30610
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    EMB88; EMBRYO DEFECTIVE 2279; EMBRYO DEFECTIVE 88; T5I8.6; T5I8_6
    Summary
    Mutations in this locus result in embryo lethality. Embryo shape at seed maturity is globular.
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    Genomic context

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    See EMB2279 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    9
    Sequence:
    Chromosome: 1; NC_003070.9 (10846513..10850724)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene RNA polymerase I specific transcription initiation factor RRN3 protein Neighboring gene Subtilase family protein Neighboring gene NAD(P)-binding Rossmann-fold superfamily protein Neighboring gene Coatomer epsilon subunit Neighboring gene Protein kinase family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. T-DNA-associated duplication/translocations in Arabidopsis. Implications for mutant analysis and functional genomics. Tax FE, et al. Plant Physiol, 2001 Aug. PMID 11500551, Free PMC Article
    2. The Pentatricopeptide Repeat Protein SOT5/EMB2279 Is Required for Plastid rpl2 and trnK Intron Splicing. Huang W, et al. Plant Physiol, 2018 Jun. PMID 29686056, Free PMC Article
    3. Arabidopsis emb175 and other ppr knockout mutants reveal essential roles for pentatricopeptide repeat (PPR) proteins in plant embryogenesis. Cushing DA, et al. Planta, 2005 Jun. PMID 15647901
    4. Discovering the RNA-Binding Proteome of Plant Leaves with an Improved RNA Interactome Capture Method. Bach-Pages M, et al. Biomolecules, 2020 Apr 24. PMID 32344669, Free PMC Article
    5. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. EMB2279 is required for intron splicing of plastid rpl2 and trnK.
      Title: The Pentatricopeptide Repeat Protein SOT5/EMB2279 Is Required for Plastid rpl2 and trnK Intron Splicing.
    Submit: New GeneRIF Correction

    General gene information

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    NM_001198188.2
    NM_102798.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within chloroplast mRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in chloroplast organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within chloroplast organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryo development ending in seed dormancy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryo development ending in seed dormancy NAS
    Non-traceable Author Statement
    more info
    		  
    acts_upstream_of_or_within embryo development ending in seed dormancy TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within suspensor development IMP
    Inferred from Mutant Phenotype
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    pentatricopeptide (PPR) repeat-containing protein
    NP_001185117.1
    • EMBRYO DEFECTIVE 2279 (EMB2279); FUNCTIONS IN: binding; INVOLVED IN: embryo development ending in seed dormancy; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pentatricopeptide repeat (InterPro:IPR002885), Tetratricopeptide-like helical (InterPro:IPR011990); BEST Arabidopsis thaliana protein match is: Tetratricopeptide repeat (TPR)-like superfamily protein (TAIR:AT5G67570.1).
    NP_174349.1
    • EMBRYO DEFECTIVE 2279 (EMB2279); INVOLVED IN: suspensor development, embryo development ending in seed dormancy; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pentatricopeptide repeat (InterPro:IPR002885); BEST Arabidopsis thaliana protein match is: Tetratricopeptide repeat (TPR)-like superfamily protein (TAIR:AT5G67570.1); Has 17514 Blast hits to 7499 proteins in 222 species: Archae - 1; Bacteria - 12; Metazoa - 167; Fungi - 55; Plants - 16537; Viruses - 1; Other Eukaryotes - 741 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003070.9 Reference assembly

      Range
      10846513..10850724
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001198188.2 → NP_001185117.1  pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001185117.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WJ91, F4I6D9
      Conserved Domains (4) summary
      sd00004
      Location:734 → 760
      PPR; PPR repeat [structural motif]
      pfam01535
      Location:767 → 796
      PPR; PPR repeat
      pfam13041
      Location:764 → 824
      PPR_2; PPR repeat family
      pfam13812
      Location:593 → 626
      PPR_3; Pentatricopeptide repeat domain

    2. NM_102798.2 → NP_174349.1  pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_174349.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9SA76
      UniProtKB/TrEMBL
      A0A7G2DYA8
      Conserved Domains (4) summary
      sd00004
      Location:762 → 788
      PPR; PPR repeat [structural motif]
      pfam01535
      Location:795 → 824
      PPR; PPR repeat
      pfam13041
      Location:792 → 852
      PPR_2; PPR repeat family
      pfam13812
      Location:593 → 626
      PPR_3; Pentatricopeptide repeat domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SA76.1

    Gene LinkOut

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