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Ppp4r3a protein phosphatase 4, regulatory subunit 3A [ Rattus norvegicus (Norway rat) ]

Gene ID: 314388, updated on 2-Nov-2024

Summary

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Official Symbol
Ppp4r3aprovided by RGD
Official Full Name
protein phosphatase 4, regulatory subunit 3Aprovided by RGD
Primary source
RGD:1309059
See related
EnsemblRapid:ENSRNOG00000027773 AllianceGenome:RGD:1309059
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Smek1; RGD1309059
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 act upstream of or within positive regulation of gluconeogenesis and protein dephosphorylation. Predicted to be located in cytosol and nuclear speck. 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, Nov 2024]
Expression
Biased expression in Thymus (RPKM 243.4), Spleen (RPKM 204.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ppp4r3a in Genome Data Viewer
Location:
6q32
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (126032068..126098329, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (120302508..120365907, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (125040803..125083496, complement)

Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene G protein-coupled receptor 68 Neighboring gene coiled-coil domain containing 88C Neighboring gene small ribosomal subunit protein uS2-like Neighboring gene ribosomal protein S3, pseudogene 6

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Suppressor of MEK null (SMEK)/protein phosphatase 4 catalytic subunit (PP4C) is a key regulator of hepatic gluconeogenesis. Yoon YS, et al. Proc Natl Acad Sci U S A, 2010 Oct 12. PMID 20876121, Free PMC Article
  2. Gene expression profile of the rat eye iridocorneal angle: NEIBank expressed sequence tag analysis. Ahmed F, et al. Invest Ophthalmol Vis Sci, 2004 Sep. PMID 15326124
  3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

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
  
acts_upstream_of gluconeogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of gluconeogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within protein dephosphorylation ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of double-strand break repair IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear speck IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of protein phosphatase 4 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of protein phosphatase 4 complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
serine/threonine-protein phosphatase 4 regulatory subunit 3A
Names
SMEK homolog 1, suppressor of mek1

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_001108050.3 → NP_001101520.2  serine/threonine-protein phosphatase 4 regulatory subunit 3A isoform 2

    See identical proteins and their annotated locations for NP_001101520.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate splice site in the coding region, compared to variant 1. The resulting isoform (2) lacks an internal segment, compared to isoform 1.
    Source sequence(s)
    FQ211523, JAXUCZ010000006
    UniProtKB/TrEMBL
    A0A8I6ARL9, A6JEI6
    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

  2. NM_001271174.2 → NP_001258103.1  serine/threonine-protein phosphatase 4 regulatory subunit 3A isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    FQ211523, JAXUCZ010000006
    UniProtKB/TrEMBL
    A0A8I6ARL9, A0A8I6AS21
    Related
    ENSRNOP00000095747.1, ENSRNOT00000106200.2
    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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086024.1 Reference GRCr8

    Range
    126032068..126098329 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063261975.1 → XP_063118045.1  serine/threonine-protein phosphatase 4 regulatory subunit 3A isoform X2

  2. XM_039112354.2 → XP_038968282.1  serine/threonine-protein phosphatase 4 regulatory subunit 3A isoform X1

    UniProtKB/TrEMBL
    A0A8I6GJF4, D4ABC4
    Related
    ENSRNOP00000091226.1, ENSRNOT00000114004.2
    Conserved Domains (1) summary
    pfam04802
    Location:122 → 313
    SMK-1; Component of IIS longevity pathway SMK-1

  3. XM_039112355.2 → XP_038968283.1  serine/threonine-protein phosphatase 4 regulatory subunit 3A isoform X3

    UniProtKB/TrEMBL
    D4ABC4
    Conserved Domains (1) summary
    pfam04802
    Location:42 → 233
    SMK-1; Component of IIS longevity pathway SMK-1

  4. XM_039112356.2 → XP_038968284.1  serine/threonine-protein phosphatase 4 regulatory subunit 3A isoform X3

    UniProtKB/TrEMBL
    D4ABC4
    Related
    ENSRNOP00000038439.7, ENSRNOT00000034961.8
    Conserved Domains (1) summary
    pfam04802
    Location:42 → 233
    SMK-1; Component of IIS longevity pathway SMK-1

  5. XM_039112357.2 → XP_038968285.1  serine/threonine-protein phosphatase 4 regulatory subunit 3A isoform X4

    Conserved Domains (3) summary
    pfam04802
    Location:166 → 357
    SMK-1; Component of IIS longevity pathway SMK-1
    cl17171
    Location:7 → 65
    PH-like; Pleckstrin homology-like domain
    cl26969
    Location:325 → 402
    Vitellogenin_N; Lipoprotein amino terminal region
Nucleotide Protein Strain
Heading Accession and Version

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