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

    Gene ID: 214616, updated on 2-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 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 molecular_function ND
    No biological Data available
    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 biological_process ND
    No biological Data available
    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
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    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