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    VIM vimentin [ Sus scrofa (pig) ]

    Gene ID: 100522394, updated on 17-Aug-2024

    Summary

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    Official Symbol
    VIMprovided by VGNC
    Official Full Name
    vimentinprovided by VGNC
    Primary source
    VGNC:VGNC:95565
    See related
    Ensembl:ENSSSCG00000011033
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Expression
    Broad expression in subcutaneous adipose (RPKM 964.8), ovary (RPKM 781.4) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See VIM in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 10 NC_010452.4 (43516441..43526172)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 10 NC_010452.3 (48225950..48235670)

    Chromosome 10 - NC_010452.4Genomic Context describing neighboring genes Neighboring gene cubilin Neighboring gene tRNA aspartic acid methyltransferase 1 Neighboring gene ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 6 Neighboring gene 60S ribosomal protein L23a pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    Related articles in PubMed

    1. Vimentin rearrangement by phosphorylation is beneficial for porcine reproductive and respiratory syndrome virus replication in vitro. Zheng XX, et al. Vet Microbiol, 2021 Aug. PMID 34087674
    2. Amino acid sequence characterization of mammalian vimentin, the mesenchymal intermediate filament protein. Geisler N, et al. FEBS Lett, 1983 Oct 31. PMID 6628686
    3. Related amino acid sequences in neurofilaments and non-neural intermediate filaments. Geisler N, et al. Nature, 1982 Apr 1. PMID 7199625
    4. Regional localisations of VIM, HSD3b, ACTA1 and PGM1 in pigs. Tosser-Klopp G, et al. Anim Genet, 1998 Feb. PMID 9682444
    5. Defining the cellular target(s) of porcine reproductive and respiratory syndrome virus blocking monoclonal antibody 7G10. Kim JK, et al. J Virol, 2006 Jan. PMID 16378972, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. NLRP9 involved in antiviral innate immunity via binding VIM in IPEC-J2 cells.
      Title: NLRP9 involved in antiviral innate immunity via binding VIM in IPEC-J2 cells.
    2. Vimentin rearrangement by phosphorylation is beneficial for porcine reproductive and respiratory syndrome virus replication in vitro.
      Title: Vimentin rearrangement by phosphorylation is beneficial for porcine reproductive and respiratory syndrome virus replication in vitro.
    3. ANXA2 can interact with vimentin and enhance porcine reproductive and respiratory syndrome virus (PRRSV) growth. This contributes to the regulation of PRRSV replication in infected cells and may have implications for the future antiviral strategies.
      Title: Annexin A2 binds to vimentin and contributes to porcine reproductive and respiratory syndrome virus multiplication.
    4. These observations indicate that vimentin serves as a putative receptor for Japanese encephalitis virus in porcine kidney cells.
      Title: Japanese encephalitis virus interacts with vimentin to facilitate its entry into porcine kidney cell line.
    5. As the inner cell mass forms the epiblast, SSEA1 is lost and VIMENTIN is lost and re-expressed.
      Title: Ultrastructural and molecular distinctions between the porcine inner cell mass and epiblast reveal unique pluripotent cell states.
    6. Interaction of nucleocapsid protein of transmissible gastroenteritis virus with host vimentin is required for virus infection.
      Title: Identification of the interaction between vimentin and nucleocapsid protein of transmissible gastroenteritis virus.
    7. protein(s) that associated with RPTPbeta in response to IGF-I and IGFBP-2 in vascular smooth muscle cells
      Title: The coordinate cellular response to insulin-like growth factor-I (IGF-I) and insulin-like growth factor-binding protein-2 (IGFBP-2) is regulated through vimentin binding to receptor tyrosine phosphatase β (RPTPβ).
    8. This study demonstrates that maternal VIM, as a genomic protector, is crucial for nuclear reprogramming in porcine cloned embryos.
      Title: Identification and characterization of an oocyte factor required for porcine nuclear reprogramming.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables structural constituent of cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in intermediate filament organization IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in axon IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in intermediate filament IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    vimentin

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010452.4 Reference Sscrofa11.1 Primary Assembly

      Range
      43516441..43526172
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005668106.3 → XP_005668163.1  vimentin isoform X1

      See identical proteins and their annotated locations for XP_005668163.1

      UniProtKB/Swiss-Prot
      F1RWB8, F1RWC0, P02543
      UniProtKB/TrEMBL
      A0A0B8RVD8, A0A4X1UCE3
      Related
      ENSSSCP00000011767.4, ENSSSCT00000012075.4
      Conserved Domains (3) summary
      pfam00038
      Location:102 → 410
      Filament; Intermediate filament protein
      pfam04732
      Location:6 → 101
      Filament_head; Intermediate filament head (DNA binding) region
      pfam06156
      Location:108 → 218
      DUF972; Protein of unknown function (DUF972)

    2. XM_005668107.3 → XP_005668164.1  vimentin isoform X2

      UniProtKB/TrEMBL
      A0A4X1UCD8, A0A5G2QE62, A0A8D1IJK2
      Related
      ENSSSCP00000060330.1, ENSSSCT00000071311.2
      Conserved Domains (3) summary
      pfam00038
      Location:102 → 410
      Filament; Intermediate filament protein
      pfam04732
      Location:6 → 101
      Filament_head; Intermediate filament head (DNA binding) region
      pfam06156
      Location:108 → 218
      DUF972; Protein of unknown function (DUF972)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P02543.2 GenPept UniProtKB/Swiss-Prot:P02543

    Gene LinkOut

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