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

Gene ID: 301549, updated on 2-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 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

Gene LinkOut

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