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    Vim vimentin [ Mus musculus (house mouse) ]

    Gene ID: 22352, updated on 9-Dec-2024

    Summary

    Official Symbol
    Vimprovided by MGI
    Official Full Name
    vimentinprovided by MGI
    Primary source
    MGI:MGI:98932
    See related
    Ensembl:ENSMUSG00000026728 AllianceGenome:MGI:98932
    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
    Summary
    Enables RNA binding activity. A structural constituent of cytoskeleton and structural constituent of eye lens. Involved in intermediate filament organization and positive regulation of gene expression. Acts upstream of or within several processes, including astrocyte differentiation; cellular response to type II interferon; and lens fiber cell development. Located in several cellular components, including cell leading edge; intermediate filament; and phagocytic vesicle. Is expressed in several structures, including alimentary system; brain; genitourinary system; heart; and sensory organ. Used to study cataract 30. Human ortholog(s) of this gene implicated in atherosclerosis; autoimmune disease (multiple); and cataract 30. Orthologous to human VIM (vimentin). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in subcutaneous fat pad adult (RPKM 622.6), mammary gland adult (RPKM 524.7) and 24 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Vim in Genome Data Viewer
    Location:
    2 A1; 2 10.04 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (13579122..13587637)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (13574311..13582826)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_03709 Neighboring gene predicted gene, 54102 Neighboring gene predicted gene 9875 Neighboring gene ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 6 Neighboring gene STARR-seq mESC enhancer starr_03712 Neighboring gene STARR-seq mESC enhancer starr_03715 Neighboring gene STARR-positive B cell enhancer ABC_E3359 Neighboring gene STARR-positive B cell enhancer ABC_E10082 Neighboring gene STARR-positive B cell enhancer ABC_E7793 Neighboring gene STARR-seq mESC enhancer starr_03717 Neighboring gene STARR-seq mESC enhancer starr_03718 Neighboring gene STARR-seq mESC enhancer starr_03719 Neighboring gene STARR-seq mESC enhancer starr_03720 Neighboring gene STARR-seq mESC enhancer starr_03721 Neighboring gene 3-hydroxyacyl-CoA dehydratase 1

    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)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC102095

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables double-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    enables identical protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables keratin filament binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables keratin filament binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables molecular adaptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein domain specific binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein phosphatase 2A binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein tyrosine kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables scaffold protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables scaffold protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables structural constituent of cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables structural constituent of cytoskeleton IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables structural constituent of cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
     
    enables structural constituent of eye lens IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within Bergmann glial cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within astrocyte development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in cellular response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to lipopolysaccharide ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to muramyl dipeptide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to muramyl dipeptide ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within cellular response to type II interferon IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in intermediate filament organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within intermediate filament organization IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in intermediate filament organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within intermediate filament-based process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within lens fiber cell development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of neuron projection development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of neuron projection development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of collagen biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of collagen biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of epithelial cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of glial cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of Schwann cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of axonogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of mRNA stability IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of mRNA stability ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in axon IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in axon ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell body ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell leading edge IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell projection IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell projection ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in intermediate filament IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in intermediate filament IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in intermediate filament ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intermediate filament cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
     
    located_in neuron projection IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear matrix IEA
    Inferred from Electronic Annotation
    more info
     
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in peroxisome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in peroxisome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in phagocytic vesicle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in type III intermediate filament TAS
    Traceable Author Statement
    more info
    PubMed 

    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_011701.4NP_035831.2  vimentin

      See identical proteins and their annotated locations for NP_035831.2

      Status: VALIDATED

      Source sequence(s)
      AK133726
      Consensus CDS
      CCDS15696.1
      UniProtKB/Swiss-Prot
      O08704, P20152, Q8CCH1
      UniProtKB/TrEMBL
      Q3U6S1, Q3V2S4, Q5FWJ3
      Related
      ENSMUSP00000028062.3, ENSMUST00000028062.8
      Conserved Domains (2) summary
      pfam00038
      Location:102410
      Filament; Intermediate filament protein
      pfam04732
      Location:14101
      Filament_head; Intermediate filament head (DNA binding) region

    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
      13579122..13587637
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)