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Pex6 peroxisomal biogenesis factor 6 [ Rattus norvegicus (Norway rat) ]

Gene ID: 117265, updated on 11-Apr-2024

Summary

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Symbol
Pex6provided by RGD
Full Name
peroxisomal biogenesis factor 6provided by RGD
Primary source
RGD:621637
See related
Ensembl:ENSRNOG00000016655 AllianceGenome:RGD:621637
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Paf2; Paf-2
Summary
Predicted to enable ATP binding activity; ATP hydrolysis activity; and protein C-terminus binding activity. Involved in peroxisome organization. Located in peroxisomal membrane. Used to study peroxisomal disease. Human ortholog(s) of this gene implicated in Heimler syndrome 2; peroxisomal biogenesis disorder; and peroxisome biogenesis disorder 4A. Orthologous to human PEX6 (peroxisomal biogenesis factor 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 192.1), Adrenal (RPKM 154.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
9q12
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (21755747..21767939, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (14258145..14270335, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (16568743..16580900, complement)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene pre T-cell antigen receptor alpha Neighboring gene canopy FGF signaling regulator 3 Neighboring gene glycine N-methyltransferase Neighboring gene protein phosphatase 2, regulatory subunit B', delta Neighboring gene kelch domain containing 3 Neighboring gene male-enhanced antigen 1

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
  • 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. Peroxisome assembly factor-2, a putative ATPase cloned by functional complementation on a peroxisome-deficient mammalian cell mutant. Tsukamoto T, et al. Nat Genet, 1995 Dec. PMID 7493019
  2. PEX6 is Expressed in Photoreceptor Cilia and Mutated in Deafblindness with Enamel Dysplasia and Microcephaly. Zaki MS, et al. Hum Mutat, 2016 Feb. PMID 26593283
  3. Human peroxisome assembly factor-2 (PAF-2): a gene responsible for group C peroxisome biogenesis disorder in humans. Fukuda S, et al. Am J Hum Genet, 1996 Dec. PMID 8940266, Free PMC Article
  4. The peroxisome biogenesis disorder group 4 gene, PXAAA1, encodes a cytoplasmic ATPase required for stability of the PTS1 receptor. Yahraus T, et al. EMBO J, 1996 Jun 17. PMID 8670792, Free PMC Article
  5. Phenotype-genotype relationships in peroxisome biogenesis disorders of PEX1-defective complementation group 1 are defined by Pex1p-Pex6p interaction. Tamura S, et al. Biochem J, 2001 Jul 15. PMID 11439091, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

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

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding ISO
Inferred from Sequence Orthology
more info
  
enables ATP hydrolysis activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ATP hydrolysis activity ISO
Inferred from Sequence Orthology
more info
  
enables protein transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables protein transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin-modified protein reader activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin-modified protein reader activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in peroxisome organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in peroxisome organization ISO
Inferred from Sequence Orthology
more info
  
involved_in protein import into peroxisome matrix IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein import into peroxisome matrix, receptor recycling ISO
Inferred from Sequence Orthology
more info
  
involved_in protein import into peroxisome matrix, receptor recycling ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein import into peroxisome matrix, translocation ISO
Inferred from Sequence Orthology
more info
  
involved_in protein stabilization ISO
Inferred from Sequence Orthology
more info
  
involved_in protein targeting to peroxisome ISO
Inferred from Sequence Orthology
more info
  
involved_in protein unfolding ISO
Inferred from Sequence Orthology
more info
  
involved_in protein unfolding ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
is_active_in peroxisomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in peroxisomal membrane IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in peroxisomal membrane ISO
Inferred from Sequence Orthology
more info
  
located_in peroxisome ISO
Inferred from Sequence Orthology
more info
  
located_in photoreceptor cell cilium ISO
Inferred from Sequence Orthology
more info
  
located_in photoreceptor cell cilium ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in photoreceptor outer segment IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
peroxisomal ATPase PEX6
Names
peroxin-6
peroxisomal-type ATPase 1
peroxisome assembly factor 2
peroxisome assembly factor 2-like

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_057125.1 → NP_476466.1  peroxisomal ATPase PEX6

    See identical proteins and their annotated locations for NP_476466.1

    Status: PROVISIONAL

    Source sequence(s)
    D63673
    UniProtKB/Swiss-Prot
    O55097, P54777
    UniProtKB/TrEMBL
    A6JIM9
    Related
    ENSRNOP00000022582.5, ENSRNOT00000022582.7
    Conserved Domains (3) summary
    COG0464
    Location:463 → 965
    SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
    pfam00004
    Location:741 → 869
    AAA; ATPase family associated with various cellular activities (AAA)
    pfam09336
    Location:923 → 975
    Vps4_C; Vps4 C terminal oligomerization 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_086027.1 Reference GRCr8

    Range
    21755747..21767939 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063266580.1 → XP_063122650.1  peroxisomal ATPase PEX6 isoform X1

RNA

  1. XR_005488842.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P54777.1 GenPept UniProtKB/Swiss-Prot:P54777

Gene LinkOut

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