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Wdr59 WD repeat domain 59 [ Mus musculus (house mouse) ]

Gene ID: 319481, updated on 2-Nov-2024

Summary

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Official Symbol
Wdr59provided by MGI
Official Full Name
WD repeat domain 59provided by MGI
Primary source
MGI:MGI:2442115
See related
Ensembl:ENSMUSG00000031959 AllianceGenome:MGI:2442115
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Cdw12; 5430401O09Rik
Summary
Predicted to enable signaling adaptor activity. Predicted to be involved in cellular response to amino acid starvation and positive regulation of TORC1 signaling. Predicted to act upstream of or within positive regulation of protein kinase activity and protein localization to plasma membrane. Predicted to be located in cytosol and lysosomal membrane. Predicted to be part of GATOR2 complex. Predicted to be active in vacuolar membrane. Is expressed in ductus deferens; metanephros; prostate gland; testis; and thyroid gland. Orthologous to human WDR59 (WD repeat domain 59). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in ovary adult (RPKM 7.6), CNS E18 (RPKM 5.7) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Wdr59 in Genome Data Viewer
Location:
8 E1; 8 57.98 cM
Exon count:
28
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (112175413..112248760, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (111448781..111522128, complement)

Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene fatty acid 2-hydroxylase Neighboring gene STARR-seq mESC enhancer starr_22695 Neighboring gene predicted gene, 24793 Neighboring gene STARR-positive B cell enhancer ABC_E112 Neighboring gene STARR-seq mESC enhancer starr_22698 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:114079308-114079417 Neighboring gene STARR-positive B cell enhancer ABC_E5041 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:114087696-114087913 Neighboring gene zinc and ring finger 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:114116137-114116338 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:114119771-114119993 Neighboring gene STARR-seq mESC enhancer starr_22705 Neighboring gene STARR-positive B cell enhancer ABC_E9323 Neighboring gene STARR-positive B cell enhancer ABC_E885 Neighboring gene STARR-positive B cell enhancer ABC_E5042 Neighboring gene STARR-seq mESC enhancer starr_22707 Neighboring gene STARR-seq mESC enhancer starr_22708 Neighboring gene lactate dehydrogenase D Neighboring gene zinc finger protein 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. The GATOR2-mTORC2 axis mediates Sestrin2-induced AKT Ser/Thr kinase activation. Kowalsky AH, et al. J Biol Chem, 2020 Feb 14. PMID 31915252, Free PMC Article
  2. ILDR2 stabilization is regulated by its interaction with GRP78. Watanabe K, et al. Sci Rep, 2021 Apr 16. PMID 33863978, Free PMC Article
  3. SZT2 dictates GATOR control of mTORC1 signalling. Peng M, et al. Nature, 2017 Mar 16. PMID 28199315, Free PMC Article
  4. CUL4-DDB1 ubiquitin ligase interacts with multiple WD40-repeat proteins and regulates histone methylation. Higa LA, et al. Nat Cell Biol, 2006 Nov. PMID 17041588
  5. DDB1 binds histone reader BRWD3 to activate the transcriptional cascade in adipogenesis and promote onset of obesity. Wang X, et al. Cell Rep, 2021 Jun 22. PMID 34161765

See all (27) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • 5430401O09Rik

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables molecular_function ND
No biological Data available
more info
  
enables signaling adaptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in cellular response to amino acid starvation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cellular response to amino acid starvation IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to amino acid starvation ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to nutrient levels ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to nutrient levels ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of TORC1 signaling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of TORC1 signaling ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of TORC1 signaling ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within positive regulation of protein kinase activity ISO
Inferred from Sequence Orthology
more info
 PubMed 
acts_upstream_of_or_within protein localization to plasma membrane ISO
Inferred from Sequence Orthology
more info
 PubMed 
Component Evidence Code Pubs
part_of GATOR2 complex ISO
Inferred from Sequence Orthology
more info
  
part_of GATOR2 complex ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of Seh1-associated complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
located_in lysosomal membrane ISO
Inferred from Sequence Orthology
more info
  
located_in lysosomal membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in vacuolar membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
GATOR2 complex protein WDR59
Names
CUL4- and DDB1-associated WDR protein 12
GATOR complex protein WDR59
WD repeat-containing protein 59

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_001170742.2 → NP_001164213.1  GATOR2 complex protein WDR59 isoform 3

    See identical proteins and their annotated locations for NP_001164213.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the central coding region, compared to variant 1. This variant encodes isoform 3, which is shorter than isoform 1.
    Source sequence(s)
    AC124985, AC127356
    Consensus CDS
    CCDS85613.1
    UniProtKB/Swiss-Prot
    Q3TC49, Q3UWJ3, Q69Z65, Q6NZK7, Q8BLZ2, Q8BWK9, Q8C0M0
    Related
    ENSMUSP00000043671.9, ENSMUST00000038193.15
    Conserved Domains (5) summary
    smart00591
    Location:394 → 494
    RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain
    COG2319
    Location:34 → 314
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:62 → 103
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:100 → 343
    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 ...
    cl24077
    Location:924 → 972
    Zn_ribbon_17; Zinc-ribbon, C4HC2 type

  2. NM_001170743.2 → NP_001164214.1  GATOR2 complex protein WDR59 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC124985, AC127356
    Consensus CDS
    CCDS52672.1
    UniProtKB/Swiss-Prot
    Q3TC49, Q3UWJ3, Q69Z65, Q6NZK7, Q8BLZ2, Q8BWK9, Q8C0M0
    Related
    ENSMUSP00000034437.8, ENSMUST00000034437.8
    Conserved Domains (5) summary
    smart00591
    Location:394 → 494
    RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain
    COG2319
    Location:34 → 314
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:62 → 103
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:100 → 343
    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 ...
    cl24077
    Location:943 → 991
    Zn_ribbon_17; Zinc-ribbon, C4HC2 type

  3. NM_001402828.1 → NP_001389757.1  GATOR2 complex protein WDR59 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC124985, AC127356

  4. NM_001402829.1 → NP_001389758.1  GATOR2 complex protein WDR59 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC124985, AC127356

  5. NM_176923.5 → NP_795897.2  GATOR2 complex protein WDR59 isoform 2

    See identical proteins and their annotated locations for NP_795897.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has multiple differences in the coding region but maintains the reading frame, compared to variant 1. This variant encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AC124985, AC127356
    Consensus CDS
    CCDS22675.1
    UniProtKB/Swiss-Prot
    Q3TC49, Q3UWJ3, Q69Z65, Q6NZK7, Q8BLZ2, Q8BWK9, Q8C0M0
    UniProtKB/TrEMBL
    A0A1D5RLJ8
    Related
    ENSMUSP00000148397.2, ENSMUST00000211981.2
    Conserved Domains (5) summary
    smart00591
    Location:394 → 494
    RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain
    COG2319
    Location:34 → 314
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:62 → 103
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:100 → 343
    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 ...
    cl24077
    Location:941 → 989
    Zn_ribbon_17; Zinc-ribbon, C4HC2 type

RNA

  1. NR_175299.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC124985, AC127356

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000074.7 Reference GRCm39 C57BL/6J

    Range
    112175413..112248760 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011248402.2 → XP_011246704.1  GATOR2 complex protein WDR59 isoform X3

    Conserved Domains (3) summary
    smart00591
    Location:394 → 494
    RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain
    sd00039
    Location:62 → 103
    7WD40; WD40 repeat [structural motif]
    cl29593
    Location:100 → 343
    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. XR_387752.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8C0M0.2 GenPept UniProtKB/Swiss-Prot:Q8C0M0

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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