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Afg2b AFG2 AAA ATPase homolog B [ Mus musculus (house mouse) ]

Gene ID: 214616, updated on 27-Nov-2024

Summary

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Official Symbol
Afg2bprovided by MGI
Official Full Name
AFG2 AAA ATPase homolog Bprovided by MGI
Primary source
MGI:MGI:3036261
See related
Ensembl:ENSMUSG00000118663 AllianceGenome:MGI:3036261
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
Spata5l1; C130039A10Rik
Summary
Predicted to enable preribosome binding activity. Predicted to be involved in ribosomal large subunit biogenesis. Predicted to be located in cytoplasm and spindle. Is expressed in placenta. Human ortholog(s) of this gene implicated in autosomal recessive nonsyndromic deafness. Orthologous to human AFG2B (AFG2 AAA ATPase homolog B). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in adrenal adult (RPKM 25.9), ovary adult (RPKM 25.2) and 27 other tissues See more
Orthologs
human all
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Genomic context

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See Afg2b in Genome Data Viewer
Location:
2 E5; 2 60.64 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (122461112..122474933)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (122630625..122636478)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 34325 Neighboring gene STARR-positive B cell enhancer ABC_E11154 Neighboring gene predicted gene, 17958 Neighboring gene glycine amidinotransferase (L-arginine:glycine amidinotransferase) Neighboring gene STARR-positive B cell enhancer ABC_E9203 Neighboring gene STARR-positive B cell enhancer ABC_E7856 Neighboring gene expressed sequence AA467197 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:122478177-122478415 Neighboring gene microRNA 147 Neighboring gene STARR-seq mESC enhancer starr_05561 Neighboring gene STARR-positive B cell enhancer ABC_E10135 Neighboring gene STARR-positive B cell enhancer mm9_chr2:122493578-122493879 Neighboring gene solute carrier family 30 (zinc transporter), member 4

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
  • 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. Gatm, a creatine synthesis enzyme, is imprinted in mouse placenta. Sandell LL, et al. Proc Natl Acad Sci U S A, 2003 Apr 15. PMID 12671064, Free PMC Article
  2. Genetic variations strongly influence phenotypic outcome in the mouse retina. Jelcick AS, et al. PLoS One, 2011. PMID 21779340, Free PMC Article
  3. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
  4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables molecular_function ND
No biological Data available
more info
  
enables polyubiquitin modification-dependent protein binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables preribosome binding ISO
Inferred from Sequence Orthology
more info
  
enables preribosome binding ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in autophagosome maturation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in mitotic spindle disassembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in retrograde protein transport, ER to cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ribosomal large subunit biogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in ribosomal large subunit biogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
part_of VCP-NPL4-UFD1 AAA ATPase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in spindle IEA
Inferred from Electronic Annotation
more info
  
located_in spindle ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
ATPase family gene 2 protein homolog B
Names
ribosome biogenesis protein SPATA5L1
spermatogenesis associated 5-like 1
spermatogenesis-associated protein 5-like protein 1
NP_001028428.2

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_001033256.5 → NP_001028428.2  ATPase family gene 2 protein homolog B

    Status: VALIDATED

    Source sequence(s)
    AEKR01077154, AL772253
    UniProtKB/Swiss-Prot
    A0A7N9VSG0
    Related
    ENSMUSP00000159384.2, ENSMUST00000239506.1
    Conserved Domains (2) summary
    TIGR01243
    Location:14 → 738
    CDC48; AAA family ATPase, CDC48 subfamily
    pfam00004
    Location:230 → 362
    AAA; ATPase family associated with various cellular activities (AAA)

RNA

  1. NR_184860.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AEKR01077154, AL772253

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    122461112..122474933
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A7N9VSG0.1 GenPept UniProtKB/Swiss-Prot:A0A7N9VSG0

Gene LinkOut

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

Chemical Information
Molecular Biology Databases
Research Materials