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    Rrp1b ribosomal RNA processing 1B [ Mus musculus (house mouse) ]

    Gene ID: 72462, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rrp1bprovided by MGI
    Official Full Name
    ribosomal RNA processing 1Bprovided by MGI
    Primary source
    MGI:MGI:1919712
    See related
    Ensembl:ENSMUSG00000058392 AllianceGenome:MGI:1919712
    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
    Kiaa0179; mKIAA0179; D030064A17; 2600005C20Rik
    Summary
    Predicted to enable transcription coactivator activity. Involved in negative regulation of GTPase activity and regulation of RNA splicing. Located in euchromatin; heterochromatin; and nucleus. Is expressed in several structures, including alimentary system; genitourinary system; nervous system; sensory organ; and sternum. Orthologous to human RRP1B (ribosomal RNA processing 1B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 6.4), limb E14.5 (RPKM 6.2) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rrp1b in Genome Data Viewer
    Location:
    17 B1; 17 17.34 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (32255087..32281839)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (32036162..32062865)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 30571 Neighboring gene STARR-seq mESC enhancer starr_42364 Neighboring gene heat shock transcription factor 2 binding protein Neighboring gene STARR-seq mESC enhancer starr_42366 Neighboring gene pyridoxal (pyridoxine, vitamin B6) kinase, pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E4204 Neighboring gene predicted gene, 30729

    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. Rrp1b, a new candidate susceptibility gene for breast cancer progression and metastasis. Crawford NP, et al. PLoS Genet, 2007 Nov. PMID 18081427, Free PMC Article
    2. RRP1B is a metastasis modifier that regulates the expression of alternative mRNA isoforms through interactions with SRSF1. Lee M, et al. Oncogene, 2014 Apr 3. PMID 23604122, Free PMC Article
    3. Deficiencies in the region syntenic to human 21q22.3 cause cognitive deficits in mice. Yu T, et al. Mamm Genome, 2010 Jun. PMID 20512340, Free PMC Article
    4. Evolutionary breakpoints on human chromosome 21. Davisson MT, et al. Genomics, 2001 Nov. PMID 11707078
    5. The metastasis efficiency modifier ribosomal RNA processing 1 homolog B (RRP1B) is a chromatin-associated factor. Crawford NP, et al. J Biol Chem, 2009 Oct 16. PMID 19710015, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RRP1B suppresses metastatic progression by altering the transcriptome through its interaction with splicing regulators such as SRSF1
      Title: RRP1B is a metastasis modifier that regulates the expression of alternative mRNA isoforms through interactions with SRSF1.
    2. RRP1B, a tumor progression and metastasis susceptibility candidate gene, is potentially a dynamic modulator of transcription and chromatin structure
      Title: The metastasis efficiency modifier ribosomal RNA processing 1 homolog B (RRP1B) is a chromatin-associated factor.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (2) 

    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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coactivator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to virus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of GTPase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation by host of viral transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation by host of viral transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of apoptotic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of RNA splicing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in euchromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in granular component ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in granular component ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in heterochromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of preribosome, small subunit precursor IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ribosomal RNA processing protein 1 homolog B
    Names
    RRP1-like protein B
    ribosomal RNA processing 1 homolog B

    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_001163734.1 → NP_001157206.1  ribosomal RNA processing protein 1 homolog B isoform 2

      See identical proteins and their annotated locations for NP_001157206.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      CT033797
      UniProtKB/TrEMBL
      Q6ZQH4
      Related
      ENSMUST00000147076.8
      Conserved Domains (2) summary
      pfam06070
      Location:301 → 617
      Herpes_UL32; Herpesvirus large structural phosphoprotein UL32
      pfam05997
      Location:1 → 117
      Nop52; Nucleolar protein,Nop52

    2. NM_028244.2 → NP_082520.2  ribosomal RNA processing protein 1 homolog B isoform 1

      See identical proteins and their annotated locations for NP_082520.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      CT033797
      Consensus CDS
      CCDS28613.1
      UniProtKB/Swiss-Prot
      B0V2W7, Q91YK2
      UniProtKB/TrEMBL
      Q6ZQH4
      Related
      ENSMUSP00000080085.7, ENSMUST00000081339.13
      Conserved Domains (1) summary
      pfam05997
      Location:11 → 218
      Nop52; Nucleolar protein,Nop52

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      32255087..32281839
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036160793.1 → XP_036016686.1  ribosomal RNA processing protein 1 homolog B isoform X2

      UniProtKB/TrEMBL
      Q6ZQH4
      Conserved Domains (1) summary
      pfam05997
      Location:20 → 145
      Nop52; Nucleolar protein,Nop52

    2. XM_006524971.3 → XP_006525034.1  ribosomal RNA processing protein 1 homolog B isoform X1

      UniProtKB/TrEMBL
      Q6ZQH4
      Conserved Domains (2) summary
      pfam06070
      Location:332 → 648
      Herpes_UL32; Herpesvirus large structural phosphoprotein UL32
      pfam05997
      Location:2 → 148
      Nop52; Nucleolar protein,Nop52

    3. XM_006524972.3 → XP_006525035.1  ribosomal RNA processing protein 1 homolog B isoform X3

      See identical proteins and their annotated locations for XP_006525035.1

      UniProtKB/TrEMBL
      Q6ZQH4
      Conserved Domains (2) summary
      pfam06070
      Location:301 → 617
      Herpes_UL32; Herpesvirus large structural phosphoprotein UL32
      pfam05997
      Location:1 → 117
      Nop52; Nucleolar protein,Nop52

    RNA

    1. XR_001782117.3 RNA Sequence

    2. XR_003952190.2 RNA Sequence

    3. XR_003952191.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q91YK2.2 GenPept UniProtKB/Swiss-Prot:Q91YK2

    Gene LinkOut

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

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