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

Gene ID: 288615, updated on 18-Apr-2019

Summary

Official Symbol
Sbdsprovided by RGD
Official Full Name
SBDS, ribosome maturation factorprovided by RGD
Primary source
RGD:1311043
See related
Ensembl:ENSRNOG00000000888
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
Expression
Biased expression in Kidney (RPKM 335.0), Lung (RPKM 269.3) and 9 other tissues See more
Orthologs

Genomic context

See Sbds in Genome Data Viewer
Location:
12q12
Exon count:
5
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (29921443..29930602)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 12 NC_005111.3 (31858315..31867474)

Chromosome 12 - NC_005111.4Genomic Context describing neighboring genes Neighboring gene calneuron 1 Neighboring gene 40S ribosomal protein S15a pseudogene Neighboring gene interferon-induced transmembrane protein 1 pseudogene Neighboring gene tRNA-yW synthesizing protein 1 homolog Neighboring gene transmembrane protein 248 Neighboring gene RAB guanine nucleotide exchange factor 1

Genomic regions, transcripts, and products

Expression

  • 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

Pathways from BioSystems

  • Ribosome biogenesis in eukaryotes, organism-specific biosystem (from KEGG)
    Ribosome biogenesis in eukaryotes, organism-specific biosystemRibosomes are the cellular factories responsible for making proteins. In eukaryotes, ribosome biogenesis involves the production and correct assembly of four rRNAs and about 80 ribosomal proteins. It...
  • Ribosome biogenesis in eukaryotes, conserved biosystem (from KEGG)
    Ribosome biogenesis in eukaryotes, conserved biosystemRibosomes are the cellular factories responsible for making proteins. In eukaryotes, ribosome biogenesis involves the production and correct assembly of four rRNAs and about 80 ribosomal proteins. It...

General gene information

Markers

Homology

Clone Names

  • MGC105922

Gene Ontology Provided by RGD

Function Evidence Code Pubs
microtubule binding IEA
Inferred from Electronic Annotation
more info
 
microtubule binding ISO
Inferred from Sequence Orthology
more info
PubMed 
molecular_function ND
No biological Data available
more info
 
rRNA binding IEA
Inferred from Electronic Annotation
more info
 
rRNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
ribosome binding ISO
Inferred from Sequence Orthology
more info
PubMed 
ribosome binding ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
biological_process ND
No biological Data available
more info
 
bone marrow development IEA
Inferred from Electronic Annotation
more info
 
bone marrow development ISO
Inferred from Sequence Orthology
more info
PubMed 
bone mineralization IEA
Inferred from Electronic Annotation
more info
 
bone mineralization ISO
Inferred from Sequence Orthology
more info
PubMed 
cell proliferation ISO
Inferred from Sequence Orthology
more info
PubMed 
cell proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
inner cell mass cell proliferation IEA
Inferred from Electronic Annotation
more info
 
inner cell mass cell proliferation ISO
Inferred from Sequence Orthology
more info
PubMed 
leukocyte chemotaxis IEA
Inferred from Electronic Annotation
more info
 
leukocyte chemotaxis ISO
Inferred from Sequence Orthology
more info
PubMed 
mature ribosome assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
mature ribosome assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
mitotic spindle organization IEA
Inferred from Electronic Annotation
more info
 
mitotic spindle organization ISO
Inferred from Sequence Orthology
more info
PubMed 
rRNA processing IEA
Inferred from Electronic Annotation
more info
 
rRNA processing ISO
Inferred from Sequence Orthology
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
cytoplasm ISO
Inferred from Sequence Orthology
more info
PubMed 
cytosol IEA
Inferred from Electronic Annotation
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
nucleolus IEA
Inferred from Electronic Annotation
more info
 
nucleolus ISO
Inferred from Sequence Orthology
more info
PubMed 
nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
PubMed 
spindle pole ISO
Inferred from Sequence Orthology
more info
PubMed 
spindle pole ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

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)

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_001008289.1NP_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
    Related
    ENSRNOP00000001190.3, ENSRNOT00000001190.3
    Conserved Domains (3) summary
    COG1500
    Location:9241
    Sdo1; Ribosome maturation protein Sdo1 [Translation, ribosomal structure and biogenesis]
    pfam01172
    Location:1798
    SBDS; Shwachman-Bodian-Diamond syndrome (SBDS) protein
    pfam09377
    Location:107224
    SBDS_C; SBDS protein C-terminal domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005111.4 Reference Rnor_6.0 Primary Assembly

    Range
    29921443..29930602
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000080.1 Alternate Rn_Celera

    Range
    28134732..28143891
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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