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    Vps41 VPS41 HOPS complex subunit [ Mus musculus (house mouse) ]

    Gene ID: 218035, updated on 9-Dec-2024

    Summary

    Official Symbol
    Vps41provided by MGI
    Official Full Name
    VPS41 HOPS complex subunitprovided by MGI
    Primary source
    MGI:MGI:1929215
    See related
    Ensembl:ENSMUSG00000041236 AllianceGenome:MGI:1929215
    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
    Vam2; mVam2
    Summary
    Enables microtubule binding activity. Predicted to be involved in several processes, including cellular response to starvation; endosomal vesicle fusion; and vacuolar transport. Located in early endosome; late endosome membrane; and microtubule cytoskeleton. Part of HOPS complex. Is expressed in embryo; extraembryonic component; and primitive endoderm. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 29. Orthologous to human VPS41 (VPS41 subunit of HOPS complex). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in frontal lobe adult (RPKM 8.5), cortex adult (RPKM 8.2) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Vps41 in Genome Data Viewer
    Location:
    13 A2; 13 6.75 cM
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (18901462..19050981)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (18717292..18866811)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene POU domain, class 6, transcription factor 2 Neighboring gene predicted gene, 31832 Neighboring gene predicted gene, 46402 Neighboring gene STARR-seq mESC enhancer starr_33769 Neighboring gene STARR-seq mESC enhancer starr_33770 Neighboring gene STARR-seq mESC enhancer starr_33771 Neighboring gene STARR-seq mESC enhancer starr_33773 Neighboring gene STARR-seq mESC enhancer starr_33776 Neighboring gene STARR-seq mESC enhancer starr_33777 Neighboring gene STARR-seq mESC enhancer starr_33781 Neighboring gene STARR-seq mESC enhancer starr_33782 Neighboring gene STARR-seq mESC enhancer starr_33784 Neighboring gene predicted gene, 26172 Neighboring gene predicted gene, 53776

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    General gene information

    Clone Names

    • MGC159002

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables identical protein binding  
    enables identical protein binding  
    enables metal ion binding  
    enables microtubule binding PubMed 
    enables protein binding PubMed 
    Process Evidence Code Pubs
    involved_in Golgi vesicle transport  
    involved_in autophagy  
    involved_in cellular response to starvation  
    involved_in endosomal vesicle fusion  
    involved_in endosomal vesicle fusion  
    involved_in endosomal vesicle fusion  
    involved_in endosome to lysosome transport  
    involved_in endosome to lysosome transport  
    involved_in late endosome to lysosome transport  
    involved_in late endosome to lysosome transport  
    involved_in macroautophagy  
    involved_in protein targeting to vacuole  
    involved_in protein targeting to vacuole  
    involved_in regulated exocytosis  
    involved_in vesicle-mediated transport  
    involved_in vesicle-mediated transport  
    Items 1 - 20 of 29
    Component Evidence Code Pubs
    part_of AP-3 adaptor complex  
    part_of AP-3 adaptor complex  
    located_in Golgi apparatus  
    located_in Golgi-associated vesicle  
    part_of HOPS complex  
    part_of HOPS complex PubMed 
    part_of HOPS complex  
    part_of HOPS complex  
    part_of clathrin complex  
    part_of clathrin complex  
    located_in clathrin-coated vesicle  
    located_in clathrin-coated vesicle  
    located_in cytosol  
    located_in cytosol  
    located_in early endosome PubMed 
    located_in early endosome membrane  
    located_in endosome membrane  
    is_active_in late endosome  
    located_in late endosome PubMed 
    located_in late endosome  
    located_in late endosome membrane PubMed 
    located_in late endosome membrane  
    part_of lysosomal HOPS complex  
    part_of lysosomal HOPS complex  
    located_in lysosomal membrane  
    located_in lysosome  
    located_in lysosome  
    located_in membrane  
    located_in microtubule cytoskeleton PubMed 
    Items 1 - 20 of 29

    General protein information

    Preferred Names
    vacuolar protein sorting-associated protein 41 homolog
    Names
    VAM2 homolog
    vacuolar protein sorting 41

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_172120.4NP_742118.3  vacuolar protein sorting-associated protein 41 homolog

      See identical proteins and their annotated locations for NP_742118.3

      Status: VALIDATED

      Source sequence(s)
      AB028843, AI851542
      Consensus CDS
      CCDS26257.1
      UniProtKB/Swiss-Prot
      Q05AE9, Q3TPS1, Q5KU39, Q80V99, Q8BKK6, Q8CG01, Q8CJC3
      Related
      ENSMUSP00000072729.5, ENSMUST00000072961.6
      Conserved Domains (3) summary
      smart00299
      Location:570707
      CLH; Clathrin heavy chain repeat homology
      pfam00637
      Location:574709
      Clathrin; Region in Clathrin and VPS
      sd00039
      Location:87131
      7WD40; WD40 repeat [structural motif]

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      18901462..19050981
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006516641.3XP_006516704.1  vacuolar protein sorting-associated protein 41 homolog isoform X1

      UniProtKB/TrEMBL
      Q3TS83
      Conserved Domains (2) summary
      smart00299
      Location:413550
      CLH; Clathrin heavy chain repeat homology
      cd16690
      Location:629683
      RING-H2_Vps41; RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 41 (Vps41) and similar proteins
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