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Rpf2 ribosome production factor 2 homolog [ Mus musculus (house mouse) ]

Gene ID: 67239, updated on 2-Nov-2024

Summary

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Official Symbol
Rpf2provided by MGI
Official Full Name
ribosome production factor 2 homologprovided by MGI
Primary source
MGI:MGI:1914489
See related
Ensembl:ENSMUSG00000038510 AllianceGenome:MGI:1914489
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Bxdc1; 2810470K21Rik
Summary
Predicted to enable 5S rRNA binding activity and DNA-binding transcription factor activity, RNA polymerase II-specific. Predicted to be involved in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); protein localization to nucleolus; and regulation of signal transduction by p53 class mediator. Predicted to be located in chromosome and nucleoplasm. Predicted to be active in nucleolus. Is expressed in cerebral cortex ventricular layer and cortical plate. Orthologous to human RPF2 (ribosome production factor 2 homolog). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in CNS E11.5 (RPKM 9.1), liver E14 (RPKM 6.9) and 18 other tissues See more
Orthologs
human all
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Genomic context

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See Rpf2 in Genome Data Viewer
Location:
10 B1; 10 21.76 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (40099242..40123035, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (40223246..40247039, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 16 (monocarboxylic acid transporters), member 10 Neighboring gene predicted gene, 25613 Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:39873206-39873472 Neighboring gene STARR-positive B cell enhancer ABC_E11435 Neighboring gene predicted gene, 31992 Neighboring gene STARR-seq mESC enhancer starr_26412 Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:39952398-39952599 Neighboring gene STARR-positive B cell enhancer ABC_E10600 Neighboring gene STARR-seq mESC enhancer starr_26413 Neighboring gene general transcription factor IIIC, polypeptide 6, alpha Neighboring gene small nucleolar RNA, C/D box 3A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. A molecular profile of a hematopoietic stem cell niche. Hackney JA, et al. Proc Natl Acad Sci U S A, 2002 Oct 1. PMID 12226475, Free PMC Article
  2. Beads-free protein immunoprecipitation for a mass spectrometry-based interactome and posttranslational modifications analysis. Mikula M, et al. Proteome Sci, 2015. PMID 26336360, Free PMC Article
  3. The level of the transcription factor Pax6 is essential for controlling the balance between neural stem cell self-renewal and neurogenesis. Sansom SN, et al. PLoS Genet, 2009 Jun. PMID 19521500, Free PMC Article
  4. New roles for the de-ubiquitylating enzyme OTUD4 in an RNA-protein network and RNA granules. Das R, et al. J Cell Sci, 2019 Jun 17. PMID 31138677, Free PMC Article
  5. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

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 MGI

Function Evidence Code Pubs
enables 5S rRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables 5S rRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISS
Inferred from Sequence or Structural Similarity
more info
  
enables rRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in maturation of LSU-rRNA IEA
Inferred from Electronic Annotation
more info
  
involved_in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein localization to nucleolus ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization to nucleolus ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of signal transduction by p53 class mediator ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of signal transduction by p53 class mediator ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in ribosomal large subunit assembly IEA
Inferred from Electronic Annotation
more info
  
involved_in ribosomal large subunit biogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in ribosomal large subunit biogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
located_in chromosome ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleolus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
ribosome production factor 2 homolog
Names
brix domain containing 1
brix domain-containing protein 1
ribosome biogenesis protein RPF2 homolog

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_001042556.1 → NP_001036021.1  ribosome production factor 2 homolog isoform 2

    See identical proteins and their annotated locations for NP_001036021.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate splice site in the 5' region and initiates translation at a downstream start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AB041810, AK051135
    Consensus CDS
    CCDS35885.1
    UniProtKB/TrEMBL
    G3X926
    Related
    ENSMUSP00000035456.6, ENSMUST00000045114.13
    Conserved Domains (1) summary
    cl00935
    Location:1 → 253
    Brix; Brix domain

  2. NM_023323.3 → NP_075812.3  ribosome production factor 2 homolog isoform 1

    See identical proteins and their annotated locations for NP_075812.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AK012641, AK051135, BQ828311
    Consensus CDS
    CCDS59543.1
    UniProtKB/Swiss-Prot
    Q8R3K6, Q9CQ34, Q9CSY9, Q9CYR9, Q9JJ80
    Related
    ENSMUSP00000138581.2, ENSMUST00000183309.8
    Conserved Domains (1) summary
    cl00935
    Location:6 → 286
    Brix; Brix domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000076.7 Reference GRCm39 C57BL/6J

    Range
    40099242..40123035 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9JJ80.2 GenPept UniProtKB/Swiss-Prot:Q9JJ80

Gene LinkOut

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