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    ELF9 RNA binding (RRM/RBD/RNP motifs) family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 831486, updated on 18-Sep-2024

    Summary

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    Official Symbol
    ELF9
    Official Full Name
    RNA binding (RRM/RBD/RNP motifs) family protein
    Primary source
    TAIR:AT5G16260
    Locus tag
    AT5G16260
    See related
    Araport:AT5G16260
    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
    EARLY FLOWERING 9; T21H19.180; T21H19_180
    Summary
    Encodes a RNA binding protein ELF9 (EARLY FLOWERING9). Loss of ELF9 function in the Wassilewskija ecotype causes early flowering in short days. ELF9 reduces SOC1 (SUPPRESSOR OF OVEREXPRESSION OF CO1) transcript levels, possibly via nonsense-mediated mRNA decay.
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    Genomic context

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    See ELF9 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    15
    Sequence:
    Chromosome: 5; NC_003076.8 (5311141..5315834)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Plant stearoyl-acyl-carrier-protein desaturase family protein Neighboring gene uncharacterized protein Neighboring gene sister chromatid cohesion 1 protein 4 Neighboring gene Tetratricopeptide repeat (TPR)-like superfamily protein

    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. The RNA binding protein ELF9 directly reduces SUPPRESSOR OF OVEREXPRESSION OF CO1 transcript levels in arabidopsis, possibly via nonsense-mediated mRNA decay. Song HR, et al. Plant Cell, 2009 Apr. PMID 19376936, Free PMC Article
    2. 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. EARLY FLOWERING9 (ELF9), an Arabidopsis thaliana RNA binding protein, directly targets the SOC1 transcript and reduces SOC1 mRNA levels.
      Title: The RNA binding protein ELF9 directly reduces SUPPRESSOR OF OVEREXPRESSION OF CO1 transcript levels in arabidopsis, possibly via nonsense-mediated mRNA decay.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    NM_121631.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of flower development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 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_197130.1
    • EARLY FLOWERING 9 (ELF9); FUNCTIONS IN: mRNA binding, RNA binding; INVOLVED IN: negative regulation of flower development, nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; LOCATED IN: nucleus; EXPRESSED IN: 25 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), GYF (InterPro:IPR003169); 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
      5311141..5315834
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121631.3 → NP_197130.1  RNA binding (RRM/RBD/RNP motifs) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_197130.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UD25, A0A654G1K7, Q9LF02
      Conserved Domains (3) summary
      pfam14237
      Location:25 → 75
      DUF4339; Domain of unknown function (DUF4339)
      cd12281
      Location:275 → 368
      RRM1_TatSF1_like; RNA recognition motif 1 (RRM1) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
      cd12285
      Location:405 → 490
      RRM3_RBM39_like; RNA recognition motif 3 (RRM3) found in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
    Nucleotide Protein
    Heading Accession and Version

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