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    Wdfy1 WD repeat and FYVE domain containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301549, updated on 27-Nov-2024

    Summary

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    Symbol
    Wdfy1provided by RGD
    Full Name
    WD repeat and FYVE domain containing 1provided by RGD
    Primary source
    RGD:1305996
    See related
    EnsemblRapid:ENSRNOG00000015080 AllianceGenome:RGD:1305996
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable 1-phosphatidylinositol binding activity. Predicted to be involved in positive regulation of toll-like receptor 3 signaling pathway and positive regulation of toll-like receptor 4 signaling pathway. Predicted to be located in several cellular components, including Golgi apparatus; cytosol; and nucleolus. Predicted to be active in early endosome. Orthologous to human WDFY1 (WD repeat and FYVE domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 231.0), Adrenal (RPKM 146.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Wdfy1 in Genome Data Viewer
    Location:
    9q34
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (88459613..88541215, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (81034852..81092823, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (85477070..85528885, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene ribosomal protein SA, pseudogene 11 Neighboring gene adaptor related protein complex 1 subunit sigma 3 Neighboring gene 40S ribosomal protein S2 pseudogene Neighboring gene mitochondrial ribosomal protein L44

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. FENS-1 and DFCP1 are FYVE domain-containing proteins with distinct functions in the endosomal and Golgi compartments. Ridley SH, et al. J Cell Sci, 2001 Nov. PMID 11739631
    2. WDFY1 mediates TLR3/4 signaling by recruiting TRIF. Hu YH, et al. EMBO Rep, 2015 Apr. PMID 25736436, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC93914

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 1-phosphatidylinositol binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of toll-like receptor 3 signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of toll-like receptor 3 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of toll-like receptor 4 signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of toll-like receptor 4 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cell junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in early endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    WD repeat and FYVE domain-containing protein 1

    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_001393984.1 → NP_001380913.1  WD repeat and FYVE domain-containing protein 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A0G2K3L8
      Related
      ENSRNOP00000072691.1, ENSRNOT00000088963.3
      Conserved Domains (3) summary
      cd15756
      Location:279 → 354
      FYVE_WDFY1; FYVE domain found in WD40 repeat and FYVE domain-containing protein 1 (WDFY1) and similar proteins
      sd00039
      Location:28 → 67
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:16 → 272
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    RNA

    1. NR_172063.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009

    2. NR_172064.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      88459613..88541215 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063266998.1 → XP_063123068.1  WD repeat and FYVE domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K3L8

    2. XM_063266997.1 → XP_063123067.1  WD repeat and FYVE domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K3L8

    3. XM_063266996.1 → XP_063123066.1  WD repeat and FYVE domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K3L8

    RNA

    1. XR_010054584.1 RNA Sequence

    2. XR_010054585.1 RNA Sequence

    3. XR_357088.5 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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