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

Gene ID: 498582, updated on 13-Apr-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
Ensembl: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 act upstream of or within with a positive effect on CD8-positive, alpha-beta T cell activation. Predicted to act upstream of or within antigen processing and presentation and cellular response to virus. Orthologous to human WDFY4 (WDFY family member 4). [provided by Alliance of Genome Resources, Apr 2022]
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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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
  • 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

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
    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, ENSRNOT00000100506.1
    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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