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    Vcf1 VCP nuclear cofactor family member 1 [ Mus musculus (house mouse) ]

    Gene ID: 28081, updated on 30-Apr-2024

    Summary

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    Official Symbol
    Vcf1provided by MGI
    Official Full Name
    VCP nuclear cofactor family member 1provided by MGI
    Primary source
    MGI:MGI:106351
    See related
    Ensembl:ENSMUSG00000041629 AllianceGenome:MGI:106351
    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
    Fam104a; D11Wsu99e
    Summary
    Is expressed in extraembryonic component. Orthologous to human FAM104A (family with sequence similarity 104 member A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis adult (RPKM 65.2), adrenal adult (RPKM 28.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Vcf1 in Genome Data Viewer
    Location:
    11 E2; 11 79.12 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (113552145..113574988, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (113661319..113684189, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 39 (metal ion transporter), member 11 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:113331428-113331537 Neighboring gene predicted gene, 51928 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:113427091-113427274 Neighboring gene STARR-seq mESC enhancer starr_31093 Neighboring gene STARR-seq mESC enhancer starr_31094 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:113473355-113473542 Neighboring gene STARR-positive B cell enhancer mm9_chr11:113473648-113473949 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:113475868-113476055 Neighboring gene STARR-positive B cell enhancer mm9_chr11:113478982-113479282 Neighboring gene STARR-positive B cell enhancer ABC_E4012 Neighboring gene somatostatin receptor 2 Neighboring gene STARR-positive B cell enhancer ABC_E4013 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:113545452-113545561 Neighboring gene STARR-seq mESC enhancer starr_31100 Neighboring gene component of oligomeric golgi complex 1 Neighboring gene STARR-seq mESC enhancer starr_31103 Neighboring gene mitochondrial nucleoid associated protein 1 Neighboring gene cleavage and polyadenylation specific factor 4-like Neighboring gene STARR-positive B cell enhancer ABC_E8469 Neighboring gene CDC42 effector protein 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. Genome-wide mapping of unselected transcripts from extraembryonic tissue of 7.5-day mouse embryos reveals enrichment in the t-complex and under-representation on the X chromosome. Ko MS, et al. Hum Mol Genet, 1998 Nov. PMID 9811942
    2. An Interaction Landscape of Ubiquitin Signaling. Zhang X, et al. Mol Cell, 2017 Mar 2. PMID 28190767
    3. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    4. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    5. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199

    See all (17) 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)
    • Targeted (1) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    protein VCF1
    Names
    family with sequence similarity 104, member A

    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_001362751.1 → NP_001349680.1  protein VCF1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AK158872, AL603706, BC056429
      UniProtKB/TrEMBL
      Q3TY58, Q3TYF6
      Conserved Domains (1) summary
      pfam15434
      Location:76 → 186
      FAM104; Family 104

    2. NM_138598.5 → NP_613064.2  protein VCF1 isoform 2

      See identical proteins and their annotated locations for NP_613064.2

      Status: VALIDATED

      Source sequence(s)
      AK087540, AL603706, AV572367, BC056429
      Consensus CDS
      CCDS25600.2
      UniProtKB/TrEMBL
      A2A6P4
      Related
      ENSMUSP00000113652.2, ENSMUST00000120194.2
      Conserved Domains (1) summary
      pfam15434
      Location:80 → 185
      FAM104; Family 104

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      113552145..113574988 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011249064.4 → XP_011247366.1  protein VCF1 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

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