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    Sbds Sbds, ribosome maturation factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 288615, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Sbdsprovided by RGD
    Official Full Name
    Sbds, ribosome maturation factorprovided by RGD
    Primary source
    RGD:1311043
    See related
    EnsemblRapid:ENSRNOG00000000888 AllianceGenome:RGD:1311043
    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
    Summary
    Predicted to enable microtubule binding activity; rRNA binding activity; and ribosome binding activity. Predicted to be involved in several processes, including bone marrow development; bone mineralization; and ribosome biogenesis. Predicted to act upstream of or within inner cell mass cell proliferation. Predicted to be located in cytosol; nuclear lumen; and spindle pole. Human ortholog(s) of this gene implicated in Shwachman-Diamond syndrome and aplastic anemia. Orthologous to human SBDS (SBDS ribosome maturation factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 335.0), Lung (RPKM 269.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sbds in Genome Data Viewer
    Location:
    12q12
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (32056649..32065816)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (26420410..26429650)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (29921443..29930602)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene calneuron 1 Neighboring gene uncharacterized LOC134481284 Neighboring gene tRNA-yW synthesizing protein 1 homolog Neighboring gene interferon induced transmembrane protein 1, pseudogene 2 Neighboring gene transfer RNA leucine (anticodon AAG) 19 Neighboring gene transmembrane protein 248

    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. SBDS expression and localization at the mitotic spindle in human myeloid progenitors. Orelio C, et al. PLoS One, 2009 Sep 17. PMID 19759903, Free PMC Article
    2. Mitotic spindle destabilization and genomic instability in Shwachman-Diamond syndrome. Austin KM, et al. J Clin Invest, 2008 Apr. PMID 18324336, Free PMC Article
    3. Shwachman-Diamond syndrome is associated with low-turnover osteoporosis. Toiviainen-Salo S, et al. Bone, 2007 Dec. PMID 17920346
    4. The Shwachman-Diamond SBDS protein localizes to the nucleolus. Austin KM, et al. Blood, 2005 Aug 15. PMID 15860664, Free PMC Article
    5. Congenital aplastic anemia caused by mutations in the SBDS gene: a rare presentation of Shwachman-Diamond syndrome. Kuijpers TW, et al. Pediatrics, 2004 Sep. PMID 15342903

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC105922

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables microtubule binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables rRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ribosome binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ribosome binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in bone marrow development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in bone mineralization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cytosolic ribosome assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cytosolic ribosome assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cytosolic ribosome assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in hematopoietic progenitor cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in hematopoietic progenitor cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within inner cell mass cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in leukocyte chemotaxis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mitotic spindle organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in rRNA processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    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
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in spindle pole ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in spindle pole ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    ribosome maturation protein SBDS
    Names
    SBDS ribosome assembly guanine nucleotide exchange factor
    Shwachman-Bodian-Diamond syndrome homolog
    shwachman-Bodian-Diamond syndrome protein 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_001008289.1 → NP_001008290.1  ribosome maturation protein SBDS

      See identical proteins and their annotated locations for NP_001008290.1

      Status: PROVISIONAL

      Source sequence(s)
      BC086335
      UniProtKB/Swiss-Prot
      Q5RK30
      UniProtKB/TrEMBL
      A0A8L2PYQ8, A6J0M3
      Related
      ENSRNOP00000001190.5, ENSRNOT00000001190.5
      Conserved Domains (1) summary
      PTZ00448
      Location:1 → 223
      PTZ00448; hypothetical protein; Provisional

    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_086030.1 Reference GRCr8

      Range
      32056649..32065816
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089219.2 → XP_038945147.1  ribosome maturation protein SBDS isoform X1

      Conserved Domains (1) summary
      pfam09377
      Location:1 → 119
      SBDS_C; SBDS protein C-terminal domain

    2. XM_039089221.2 → XP_038945149.1  ribosome maturation protein SBDS isoform X1

      Conserved Domains (1) summary
      pfam09377
      Location:1 → 119
      SBDS_C; SBDS protein C-terminal domain

    3. XM_039089220.2 → XP_038945148.1  ribosome maturation protein SBDS isoform X1

      Conserved Domains (1) summary
      pfam09377
      Location:1 → 119
      SBDS_C; SBDS protein C-terminal domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5RK30.1 GenPept UniProtKB/Swiss-Prot:Q5RK30

    Gene LinkOut

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

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