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    Wdfy4 WDFY family member 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 498582, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Wdfy4provided by RGD
    Official Full Name
    WDFY family member 4provided by RGD
    Primary source
    RGD:1564142
    See related
    EnsemblRapid:ENSRNOG00000029662 AllianceGenome:RGD:1564142
    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
    Also known as
    RGD1564142
    Summary
    Predicted to be involved in antigen processing and presentation. Predicted to act upstream of or within with a positive effect on CD8-positive, alpha-beta T cell activation. Predicted to act upstream of or within cellular response to virus. Orthologous to human WDFY4 (WDFY family member 4). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Spleen (RPKM 279.2), Thymus (RPKM 89.5) and 4 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Wdfy4 in Genome Data Viewer
    Location:
    16p16
    Exon count:
    64
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (8228147..8456777, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (8221853..8450494, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (9194446..9430764, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 170, member B Neighboring gene V-set and transmembrane domain containing 4 Neighboring gene leucine rich repeat containing 18 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene Rho GTPase activating protein 22 Neighboring gene uncharacterized LOC134482457

    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. WDFY4 is required for cross-presentation in response to viral and tumor antigens. Theisen DJ, et al. Science, 2018 Nov 9. PMID 30409884, Free PMC Article
    2. 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

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within_positive_effect CD8-positive, alpha-beta T cell activation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in antigen processing and presentation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within antigen processing and presentation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cellular response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    WD repeat- and FYVE domain-containing protein 4

    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_001427658.1 → NP_001414587.1  WD repeat- and FYVE domain-containing protein 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000016
      UniProtKB/TrEMBL
      D4A748
      Related
      ENSRNOP00000042082.5, ENSRNOT00000043811.7

    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_086034.1 Reference GRCr8

      Range
      8228147..8456777 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039095074.1 → XP_038951002.1  WD repeat- and FYVE domain-containing protein 4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6GFA1
      Conserved Domains (4) summary
      cd01201
      Location:2389 → 2513
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      sd00039
      Location:2939 → 2982
      7WD40; WD40 repeat [structural motif]
      pfam02138
      Location:2541 → 2822
      Beach; Beige/BEACH domain
      cl29593
      Location:2904 → 3102
      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 ...

    2. XM_039095077.1 → XP_038951005.1  WD repeat- and FYVE domain-containing protein 4 isoform X5

      UniProtKB/TrEMBL
      A0A8I6GFA1
      Related
      ENSRNOP00000086747.2, ENSRNOT00000118604.2
      Conserved Domains (4) summary
      cd01201
      Location:2328 → 2452
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      sd00039
      Location:2878 → 2921
      7WD40; WD40 repeat [structural motif]
      pfam02138
      Location:2480 → 2761
      Beach; Beige/BEACH domain
      cl29593
      Location:2843 → 3041
      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 ...

    3. XM_039095075.1 → XP_038951003.1  WD repeat- and FYVE domain-containing protein 4 isoform X3

      UniProtKB/TrEMBL
      A0A8I6GFA1
      Related
      ENSRNOP00000081102.1, ENSRNOT00000100506.2
      Conserved Domains (4) summary
      cd01201
      Location:2387 → 2511
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      sd00039
      Location:2937 → 2980
      7WD40; WD40 repeat [structural motif]
      pfam02138
      Location:2539 → 2820
      Beach; Beige/BEACH domain
      cl29593
      Location:2902 → 3100
      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 ...

    4. XM_006252762.4 → XP_006252824.1  WD repeat- and FYVE domain-containing protein 4 isoform X4

      UniProtKB/TrEMBL
      A0A8I6GFA1
      Conserved Domains (5) summary
      COG2319
      Location:2861 → 3180
      WD40; WD40 repeat [General function prediction only]
      cd01201
      Location:2390 → 2514
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      pfam02138
      Location:2542 → 2823
      Beach; Beige/BEACH domain
      sd00039
      Location:2933 → 2976
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:2898 → 3096
      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 ...

    5. XM_006252760.5 → XP_006252822.1  WD repeat- and FYVE domain-containing protein 4 isoform X1

      See identical proteins and their annotated locations for XP_006252822.1

      UniProtKB/TrEMBL
      A0A8I6GFA1, D4A748
      Conserved Domains (5) summary
      COG2319
      Location:2865 → 3187
      WD40; WD40 repeat [General function prediction only]
      cd01201
      Location:2390 → 2514
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      pfam02138
      Location:2542 → 2823
      Beach; Beige/BEACH domain
      sd00039
      Location:2940 → 2983
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:2905 → 3103
      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 ...

    6. XM_039095079.2 → XP_038951007.1  WD repeat- and FYVE domain-containing protein 4 isoform X6

    Nucleotide Protein Strain
    Heading Accession and Version

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