U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Rpf1 ribosome production factor 1 homolog [ Mus musculus (house mouse) ]

    Gene ID: 70285, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Rpf1provided by MGI
    Official Full Name
    ribosome production factor 1 homologprovided by MGI
    Primary source
    MGI:MGI:1917535
    See related
    Ensembl:ENSMUSG00000028187 AllianceGenome:MGI:1917535
    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
    Bxdc5; 2210420E24Rik; 2310066N05Rik
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in maturation of 5.8S rRNA and maturation of LSU-rRNA. Predicted to be part of preribosome, large subunit precursor. Predicted to be active in nucleolus. Is expressed in embryo. Orthologous to human RPF1 (ribosome production factor 1 homolog). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in CNS E11.5 (RPKM 9.0), placenta adult (RPKM 7.1) and 24 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Rpf1 in Genome Data Viewer
    Location:
    3 H2; 3 71.57 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (146212099..146227184, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (146506344..146521423, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene chitobiase Neighboring gene spermatogenesis associated 1 Neighboring gene STARR-positive B cell enhancer ABC_E6144 Neighboring gene STARR-positive B cell enhancer ABC_E11229 Neighboring gene G protein subunit gamma 5 Neighboring gene deoxyribonuclease II beta Neighboring gene STARR-seq mESC enhancer starr_09227 Neighboring gene urate oxidase Neighboring gene predicted gene 16325 Neighboring gene sterile alpha motif domain containing 13

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. CbGRiTS: cerebellar gene regulation in time and space. Ha T, et al. Dev Biol, 2015 Jan 1. PMID 25446528
    2. Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Piao Y, et al. Genome Res, 2001 Sep. PMID 11544199, Free PMC Article
    3. Fancd2 in vivo interaction network reveals a non-canonical role in mitochondrial function. Zhang T, et al. Sci Rep, 2017 Apr 5. PMID 28378742, Free PMC Article
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

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

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC102255

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables rRNA primary transcript binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in maturation of 5.8S rRNA IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in maturation of LSU-rRNA IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of preribosome, large subunit precursor IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    ribosome production factor 1
    Names
    RNA processing factor 1
    brix domain containing 5
    brix domain-containing protein 5
    ribosome biogenesis protein RPF1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_027332.3 → NP_081608.1  ribosome production factor 1 isoform 1

      See identical proteins and their annotated locations for NP_081608.1

      Status: VALIDATED

      Source sequence(s)
      AC141632, AK008988, AK162073, BC089369
      Consensus CDS
      CCDS80049.1
      UniProtKB/TrEMBL
      A0A0G2JFR7
      Related
      ENSMUSP00000143279.2, ENSMUST00000199079.2
      Conserved Domains (1) summary
      cl00935
      Location:142 → 208
      Brix; Brix domain

    2. NM_027371.3 → NP_081647.2  ribosome production factor 1 isoform 2

      See identical proteins and their annotated locations for NP_081647.2

      Status: VALIDATED

      Source sequence(s)
      AK162073, BC089369
      Consensus CDS
      CCDS51089.1
      UniProtKB/Swiss-Prot
      Q3TBS4, Q5EBN9, Q7TND5, Q8K343
      Related
      ENSMUSP00000029838.7, ENSMUST00000029838.11
      Conserved Domains (1) summary
      smart00879
      Location:145 → 314
      Brix; The Brix domain is found in a number of eukaryotic proteins

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      146212099..146227184 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036163302.1 → XP_036019195.1  ribosome production factor 1 isoform X1

      Conserved Domains (1) summary
      smart00879
      Location:145 → 314
      Brix; The Brix domain is found in a number of eukaryotic proteins

    2. XM_036163303.1 → XP_036019196.1  ribosome production factor 1 isoform X2

      Conserved Domains (1) summary
      cl00935
      Location:142 → 205
      Brix; Brix domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7TND5.2 GenPept UniProtKB/Swiss-Prot:Q7TND5

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools