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    smek1 SMEK homolog 1, suppressor of mek1 (Dictyostelium) [ Danio rerio (zebrafish) ]

    Gene ID: 558578, updated on 28-Oct-2024

    Summary

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    Official Symbol
    smek1provided by ZNC
    Official Full Name
    SMEK homolog 1, suppressor of mek1 (Dictyostelium)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-3958
    See related
    Ensembl:ENSDARG00000042187 AllianceGenome:ZFIN:ZDB-GENE-030131-3958
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fc60g09; wu:fc60g09; si:dkey-65b13.2
    Summary
    Predicted to enable protein phosphatase activator activity. Predicted to be involved in DNA damage response and regulation of double-strand break repair. Predicted to be part of protein phosphatase 4 complex. Predicted to be active in nucleoplasm. Orthologous to human PPP4R3A (protein phosphatase 4 regulatory subunit 3A). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See smek1 in Genome Data Viewer
    Location:
    chromosome: 20
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (33467161..33487741, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (33564282..33584862, complement)

    Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene MYCN proto-oncogene, bHLH transcription factor Neighboring gene uncharacterized LOC137488668 Neighboring gene uncharacterized LOC137488669 Neighboring gene ERH mRNA splicing and mitosis factor Neighboring gene papilin b, proteoglycan-like sulfated glycoprotein

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Analyses of mRNA structure dynamics identify embryonic gene regulatory programs. Beaudoin JD, et al. Nat Struct Mol Biol, 2018 Aug. PMID 30061596, Free PMC Article
    2. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, 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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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables protein phosphatase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA damage response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of double-strand break repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of protein phosphatase 4 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    serine/threonine-protein phosphatase 4 regulatory subunit 3

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001044809.1 → NP_001038274.1  serine/threonine-protein phosphatase 4 regulatory subunit 3

      See identical proteins and their annotated locations for NP_001038274.1

      Status: VALIDATED

      Source sequence(s)
      AL929220
      UniProtKB/Swiss-Prot
      Q5SP90
      Related
      ENSDARP00000061842.5, ENSDART00000061843.8
      Conserved Domains (2) summary
      pfam04802
      Location:166 → 357
      SMK-1; Component of IIS longevity pathway SMK-1
      cl17171
      Location:7 → 65
      PH-like; Pleckstrin homology-like domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007131.7 Reference GRCz11 Primary Assembly

      Range
      33467161..33487741 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5SP90.1 GenPept UniProtKB/Swiss-Prot:Q5SP90

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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