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    Y14 RNA-binding (RRM/RBD/RNP motifs) family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 841576, updated on 18-Sep-2024

    Summary

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    Official Symbol
    Y14
    Official Full Name
    RNA-binding (RRM/RBD/RNP motifs) family protein
    Primary source
    TAIR:AT1G51510
    Locus tag
    AT1G51510
    See related
    Araport:AT1G51510
    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
    F5D21.5; F5D21_5
    Summary
    This gene is predicted to encode a protein involved in the exon junction complex. Though there is a predicted RNA binding motif, in the Drosophila ortholog (33% identity), this motif mediates interactions with Mago and is not available for RNA binding. The Arabidopsis Y14 protein appears to be predominantly nucleolar, but there is also some evidence for its presence in the cytoplasm.
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    Genomic context

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    See Y14 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    4
    Sequence:
    Chromosome: 1; NC_003070.9 (19102791..19104933, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene beta glucosidase 36 Neighboring gene ABC-2 type transporter family protein Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein Neighboring gene RNA-binding (RRM/RBD/RNP motifs) 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. Functional interconnections of Arabidopsis exon junction complex proteins and genes at multiple steps of gene expression. Mufarrege EF, et al. J Exp Bot, 2011 Oct. PMID 21676911
    2. Biochemical and cellular characterization of the plant ortholog of PYM, a protein that interacts with the exon junction complex core proteins Mago and Y14. Park NI, et al. Planta, 2007 Feb. PMID 16953428
    3. Dynamic behavior of Arabidopsis eIF4A-III, putative core protein of exon junction complex: fast relocation to nucleolus and splicing speckles under hypoxia. Koroleva OA, et al. Plant Cell, 2009 May. PMID 19435936, Free PMC Article
    4. Arabidopsis ACINUS is O-glycosylated and regulates transcription and alternative splicing of regulators of reproductive transitions. Bi Y, et al. Nat Commun, 2021 Feb 11. PMID 33574257, Free PMC Article
    5. Proteomic analysis of the Arabidopsis nucleolus suggests novel nucleolar functions. Pendle AF, et al. Mol Biol Cell, 2005 Jan. PMID 15496452, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Overexpression of Mago and Y14 in plants produces an increase in PYM protein levels.
      Title: Functional interconnections of Arabidopsis exon junction complex proteins and genes at multiple steps of gene expression.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_104029.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding HDA PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of gene expression IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol HDA PubMed 
    part_of exon-exon junction complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    located_in nuclear body HDA PubMed 
    located_in nucleolus HDA PubMed 
    located_in nucleoplasm HDA PubMed 
    located_in nucleus HDA PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    RNA-binding (RRM/RBD/RNP motifs) family protein
    NP_564591.1
    • Y14; FUNCTIONS IN: protein binding, RNA binding; INVOLVED IN: RNA processing; LOCATED IN: nucleoplasm, exon-exon junction complex, nuclear body, nucleolus, cytoplasm; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), RNA-binding motif protein 8 (InterPro:IPR008111); BEST Arabidopsis thaliana protein match is: ortholog of human splicing factor SC35 (TAIR:AT5G64200.2); Has 11259 Blast hits to 10017 proteins in 625 species: Archae - 2; Bacteria - 976; Metazoa - 6273; Fungi - 1165; Plants - 1793; Viruses - 0; Other Eukaryotes - 1050 (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
      19102791..19104933 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_104029.4 → NP_564591.1  RNA-binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_564591.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4I9J7, Q8LG23, Q94AZ6, Q9C8K3
      UniProtKB/TrEMBL
      A0A178WGD6, A0A5S9WNZ3
      Conserved Domains (1) summary
      cd12324
      Location:89 → 176
      RRM_RBM8; RNA recognition motif (RRM) found in RNA-binding protein RBM8A, RBM8B nd similar proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F4I9J7.1

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