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    transmembrane protein, putative (Protein of unknown function, DUF642) [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 831013, updated on 18-Sep-2024

    Summary

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    Official Full Name
    transmembrane protein, putative (Protein of unknown function, DUF642)
    Primary source
    TAIR:AT5G11420
    Locus tag
    AT5G11420
    See related
    Araport:AT5G11420
    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
    F15N18.10; F15N18_10
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    3
    Sequence:
    Chromosome: 5; NC_003076.8 (3644547..3647411)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene uncharacterized protein Neighboring gene SPOC domain / Transcription elongation factor S-II protein Neighboring gene uncharacterized protein Neighboring gene CTC-interacting domain 5

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. BIIDXI, the At4g32460 DUF642 gene, is involved in pectin methyl esterase regulation during Arabidopsis thaliana seed germination and plant development. Zúñiga-Sánchez E, et al. BMC Plant Biol, 2014 Dec 2. PMID 25442819, 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. Global Analysis of Membrane-associated Protein Oligomerization Using Protein Correlation Profiling. McBride Z, et al. Mol Cell Proteomics, 2017 Nov. PMID 28887381, Free PMC Article
    4. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Transgenic lines overexpressing the DUF642 proteins encoded by At4g32460 and At5g11420 showed increased pectin methyl esterase 3 activity during seed germination, and improved seed germination performance.
      Title: BIIDXI, the At4g32460 DUF642 gene, is involved in pectin methyl esterase regulation during Arabidopsis thaliana seed germination and plant development.
    Submit: New GeneRIF Correction

    General gene information

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    NM_121180.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of seed germination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of cell wall pectin metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular region ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plant-type cell wall HDA PubMed 
    located_in plasma membrane HDA PubMed 

    General protein information

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    Preferred Names
    transmembrane protein, putative (Protein of unknown function, DUF642)
    NP_196703.1
    • FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cell wall, plant-type cell wall; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF642 (InterPro:IPR006946), Galactose-binding domain-like (InterPro:IPR008979); BEST Arabidopsis thaliana protein match is: Protein of unknown function, DUF642 (TAIR:AT5G25460.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (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_003076.8 Reference assembly

      Range
      3644547..3647411
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121180.4 → NP_196703.1  transmembrane protein, putative (Protein of unknown function, DUF642) [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196703.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q570G0, Q8H168, Q8LCM9, Q9LYE7
      UniProtKB/TrEMBL
      A0A178UK33, A0A5S9Y3A2
      Conserved Domains (1) summary
      PLN03089
      Location:1 → 366
      PLN03089; hypothetical protein; Provisional
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LYE7.1

    Gene LinkOut

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