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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

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