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    VRN5 Fibronectin type III domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 822034, updated on 18-Sep-2024

    Summary

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    Official Symbol
    VRN5
    Official Full Name
    Fibronectin type III domain-containing protein
    Primary source
    TAIR:AT3G24440
    Locus tag
    AT3G24440
    See related
    Araport:AT3G24440
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    VERNALIZATION 5; VIL1; VIN3-LIKE 1
    Summary
    Encodes Vernalization Insensitive 3-like 1 (VIL1). VIL1 is involved in the photoperiod and vernalization of Arabidopsis by regulating expression of the related floral repressors Flowering Locus C (FLC) and Flowering Locus M (FLM). VIL1, along with VIN3 (Vernalization Insensitive 3) is necessary for the chromatin modification to FLC and FLM.
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    Genomic context

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    See VRN5 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    3
    Sequence:
    Chromosome: 3; NC_003074.8 (8875784..8878481, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene ATP binding protein Neighboring gene ncRNA Neighboring gene Heavy metal transport/detoxification superfamily protein Neighboring gene Serinc-domain containing serine and sphingolipid biosynthesis protein Neighboring gene nuclear transport factor 2 family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Warm temperature-triggered developmental reprogramming requires VIL1-mediated, genome-wide H3K27me3 accumulation in Arabidopsis. Kim J, et al. Development, 2023 Mar 1. PMID 36762655, Free PMC Article
    2. The PHD finger protein VRN5 functions in the epigenetic silencing of Arabidopsis FLC. Greb T, et al. Curr Biol, 2007 Jan 9. PMID 17174094
    3. A PHD finger protein involved in both the vernalization and photoperiod pathways in Arabidopsis. Sung S, et al. Genes Dev, 2006 Dec 1. PMID 17114575, Free PMC Article
    4. A PHD-polycomb repressive complex 2 triggers the epigenetic silencing of FLC during vernalization. De Lucia F, et al. Proc Natl Acad Sci U S A, 2008 Nov 4. PMID 18854416, Free PMC Article
    5. Arabidopsis MSI1 connects LHP1 to PRC2 complexes. Derkacheva M, et al. EMBO J, 2013 Jul 17. PMID 23778966, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Warm temperature-triggered developmental reprogramming requires VIL1-mediated, genome-wide H3K27me3 accumulation in Arabidopsis.
      Title: Warm temperature-triggered developmental reprogramming requires VIL1-mediated, genome-wide H3K27me3 accumulation in Arabidopsis.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001338682.1
    NM_113351.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in epigenetic regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within epigenetic regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of gene expression, epigenetic IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of flower development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in response to cold IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in short-day photoperiodism IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in short-day photoperiodism, flowering IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in vernalization response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within vernalization response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in vernalization response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of chromatin silencing complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    Fibronectin type III domain-containing protein
    NP_189087.1
    • VERNALIZATION 5 (VRN5); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: histone methylation, chromatin modification, vernalization response, regulation of flower development; LOCATED IN: chloroplast; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF1423, plant (InterPro:IPR004082), Fibronectin, type III-like fold (InterPro:IPR008957), Fibronectin, type III (InterPro:IPR003961); BEST Arabidopsis thaliana protein match is: Fibronectin type III domain-containing protein (TAIR:AT5G57380.1); Has 273 Blast hits to 232 proteins in 29 species: Archae - 0; Bacteria - 4; Metazoa - 3; Fungi - 0; Plants - 265; Viruses - 1; Other Eukaryotes - 0 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003074.8 Reference assembly

      Range
      8875784..8878481 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_113351.3 → NP_189087.1  Fibronectin type III domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_189087.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LHF5
      UniProtKB/TrEMBL
      A0A178VKK6, A0A5S9XFH4
      Conserved Domains (2) summary
      pfam00041
      Location:243 → 325
      fn3; Fibronectin type III domain
      pfam07227
      Location:49 → 169
      PHD_Oberon; PHD - plant homeodomain finger protein

    2. NM_001338682.1 → NP_001327228.1  Fibronectin type III domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VLW8, A0A1I9LRN6
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LHF5.1

    Gene LinkOut

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