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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

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