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

    Gene ID: 319481, updated on 27-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
    • 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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