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    DNA-directed RNA polymerase subunit beta (Protein of unknown function, DUF642) [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 819994, updated on 18-Sep-2024

    Summary

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    Official Full Name
    DNA-directed RNA polymerase subunit beta (Protein of unknown function, DUF642)
    Primary source
    TAIR:AT3G08030
    Locus tag
    AT3G08030
    See related
    Araport:AT3G08030
    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
    Summary
    The mRNA of this gene is expressed in viable seeds. Its detection in a dry seed lot has potential for use as a molecular marker for germination performance as absence of expression correlates with decreased germination.
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    3
    Sequence:
    Chromosome: 3; NC_003074.8 (2563803..2566042)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene serine carboxypeptidase-like 27 Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein Neighboring gene RNA binding protein Neighboring gene PHD finger family protein Neighboring gene MATE efflux family protein Neighboring gene delta-latroinsectotoxin-Lt1a protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Overview of the Role of Cell Wall DUF642 Proteins in Plant Development. Cruz-Valderrama JE, et al. Int J Mol Sci, 2019 Jul 6. PMID 31284602, Free PMC Article
    2. Cell wall proteins in apoplastic fluids of Arabidopsis thaliana rosettes: identification by mass spectrometry and bioinformatics. Boudart G, et al. Proteomics, 2005 Jan. PMID 15593128
    3. Identification and characterization of nuclear pore complex components in Arabidopsis thaliana. Tamura K, et al. Plant Cell, 2010 Dec. PMID 21189294, Free PMC Article
    4. Putative glycosyltransferases and other plant Golgi apparatus proteins are revealed by LOPIT proteomics. Nikolovski N, et al. Plant Physiol, 2012 Oct. PMID 22923678, Free PMC Article
    5. A proteomic strategy for global analysis of plant protein complexes. Aryal UK, et al. Plant Cell, 2014 Oct. PMID 25293756, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_111682.4
    NM_202525.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    part_of nuclear pore IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plant-type cell wall HDA PubMed 
    located_in plasma membrane HDA PubMed 
    located_in secretory vesicle HDA PubMed 

    General protein information

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    Preferred Names
    DNA-directed RNA polymerase subunit beta (Protein of unknown function, DUF642)
    NP_566328.1
    • Protein of unknown function, DUF642; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cell wall; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF642 (InterPro:IPR006946); BEST Arabidopsis thaliana protein match is: Protein of unknown function, DUF642 (TAIR:AT2G41800.1); Has 380 Blast hits to 353 proteins in 21 species: Archae - 0; Bacteria - 6; Metazoa - 0; Fungi - 0; Plants - 374; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).
    NP_974254.1
    • Protein of unknown function, DUF642; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cell wall; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF642 (InterPro:IPR006946); BEST Arabidopsis thaliana protein match is: Protein of unknown function, DUF642 (TAIR:AT2G41800.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (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_003074.8 Reference assembly

      Range
      2563803..2566042
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_111682.4 → NP_566328.1  DNA-directed RNA polymerase subunit beta (Protein of unknown function, DUF642) [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_566328.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VC29, A0A384KZ65, Q9SFB1
      Conserved Domains (1) summary
      PLN03089
      Location:16 → 364
      PLN03089; hypothetical protein; Provisional

    2. NM_202525.1 → NP_974254.1  DNA-directed RNA polymerase subunit beta (Protein of unknown function, DUF642) [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974254.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9C6U3
      Conserved Domains (3) summary
      PLN03089
      Location:1 → 322
      PLN03089; hypothetical protein; Provisional
      pfam04862
      Location:1 → 141
      DUF642; Protein of unknown function (DUF642)
      cl19911
      Location:152 → 319
      CBM_4_9; Carbohydrate binding domain
    Nucleotide Protein
    Heading Accession and Version

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