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

Gene ID: 288615, updated on 11-Apr-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
Ensembl: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 mineralization; hematopoietic or lymphoid organ development; 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, Apr 2022]
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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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
    ENSRNOP00000093962.1, ENSRNOT00000107229.1
    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

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