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    Wdr12 WD repeat domain 12 [ Mus musculus (house mouse) ]

    Gene ID: 57750, updated on 12-May-2024

    Summary

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    Official Symbol
    Wdr12provided by MGI
    Official Full Name
    WD repeat domain 12provided by MGI
    Primary source
    MGI:MGI:1927241
    See related
    Ensembl:ENSMUSG00000026019 AllianceGenome:MGI:1927241
    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
    Ytm1; Ytm1p; 4933402C23Rik
    Summary
    Acts upstream of or within Notch signaling pathway. Located in nucleus. Is expressed in several structures, including alimentary system; brain; cardiovascular system; genitourinary system; and immune system. Orthologous to human WDR12 (WD repeat domain 12). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in testis adult (RPKM 14.9), liver E14 (RPKM 8.3) and 22 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Wdr12 in Genome Data Viewer
    Location:
    1 C2; 1 30.45 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (60110520..60137659, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (60071361..60098500, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 117, member B Neighboring gene arginyl-tRNA synthetase 2, mitochondrial pseudogene Neighboring gene STARR-positive B cell enhancer mm9_chr1:60073097-60073398 Neighboring gene islet cell autoantigen 1-like Neighboring gene STARR-seq mESC enhancer starr_01058 Neighboring gene STARR-seq mESC enhancer starr_01059 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:60154934-60155145 Neighboring gene calcium response factor Neighboring gene predicted gene 15464 Neighboring gene STARR-seq mESC enhancer starr_01061 Neighboring gene neurobeachin like 1 Neighboring gene STARR-positive B cell enhancer mm9_chr1:60297214-60297515 Neighboring gene STARR-seq mESC enhancer starr_01062 Neighboring gene protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin) pseudogene

    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. Wdr12, a mouse gene encoding a novel WD-Repeat Protein with a notchless-like amino-terminal domain. Nal B, et al. Genomics, 2002 Jan. PMID 11827460
    2. Mutations in Hcfc1 and Ronin result in an inborn error of cobalamin metabolism and ribosomopathy. Chern T, et al. Nat Commun, 2022 Jan 10. PMID 35013307, Free PMC Article
    3. Beads-free protein immunoprecipitation for a mass spectrometry-based interactome and posttranslational modifications analysis. Mikula M, et al. Proteome Sci, 2015. PMID 26336360, Free PMC Article
    4. The TRIM9/TRIM67 neuronal interactome reveals novel activators of morphogenesis. Menon S, et al. Mol Biol Cell, 2021 Feb 15. PMID 33378226, Free PMC Article
    5. Fancd2 in vivo interaction network reveals a non-canonical role in mitochondrial function. Zhang T, et al. Sci Rep, 2017 Apr 5. PMID 28378742, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Amino-terminal similarity to Notchless WD repeat protein. May function in the modulation of Notch signaling activity.
      Title: Wdr12, a mouse gene encoding a novel WD-Repeat Protein with a notchless-like amino-terminal domain.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • 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

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within Notch signaling pathway IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    involved_in maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of PeBoW complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of PeBoW complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of preribosome, large subunit precursor IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of preribosome, large subunit precursor ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    ribosome biogenesis protein WDR12
    Names
    WD repeat-containing protein 12
    nuclear protein Ytm1

    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_001199060.1 → NP_001185989.1  ribosome biogenesis protein WDR12

      See identical proteins and their annotated locations for NP_001185989.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1-3 encode the same protein.
      Source sequence(s)
      AB041608, AU080254, BC052386
      Consensus CDS
      CCDS14988.1
      UniProtKB/Swiss-Prot
      Q9CST3, Q9JJA4, Q9JKF5
      UniProtKB/TrEMBL
      Q4V9X1
      Related
      ENSMUSP00000113494.2, ENSMUST00000117438.8
      Conserved Domains (3) summary
      cd00200
      Location:100 → 409
      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 ...
      sd00039
      Location:145 → 187
      7WD40; WD40 repeat [structural motif]
      pfam08154
      Location:4 → 70
      NLE; NLE (NUC135) domain

    2. NM_001199061.1 → NP_001185990.1  ribosome biogenesis protein WDR12

      See identical proteins and their annotated locations for NP_001185990.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1-3 encode the same protein.
      Source sequence(s)
      AK161299, BC052386
      Consensus CDS
      CCDS14988.1
      UniProtKB/Swiss-Prot
      Q9CST3, Q9JJA4, Q9JKF5
      UniProtKB/TrEMBL
      Q4V9X1
      Related
      ENSMUSP00000113148.2, ENSMUST00000122038.8
      Conserved Domains (3) summary
      cd00200
      Location:100 → 409
      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 ...
      sd00039
      Location:145 → 187
      7WD40; WD40 repeat [structural motif]
      pfam08154
      Location:4 → 70
      NLE; NLE (NUC135) domain

    3. NM_021312.5 → NP_067287.1  ribosome biogenesis protein WDR12

      See identical proteins and their annotated locations for NP_067287.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1-3 encode the same protein.
      Source sequence(s)
      BC052386, CX564842
      Consensus CDS
      CCDS14988.1
      UniProtKB/Swiss-Prot
      Q9CST3, Q9JJA4, Q9JKF5
      UniProtKB/TrEMBL
      Q4V9X1
      Related
      ENSMUSP00000027173.9, ENSMUST00000027173.15
      Conserved Domains (3) summary
      cd00200
      Location:100 → 409
      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 ...
      sd00039
      Location:145 → 187
      7WD40; WD40 repeat [structural motif]
      pfam08154
      Location:4 → 70
      NLE; NLE (NUC135) domain

    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_000067.7 Reference GRCm39 C57BL/6J

      Range
      60110520..60137659 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030255693.1 → XP_030111553.1  ribosome biogenesis protein WDR12 isoform X1

      UniProtKB/Swiss-Prot
      Q9CST3, Q9JJA4, Q9JKF5
      UniProtKB/TrEMBL
      Q4V9X1
      Conserved Domains (3) summary
      cd00200
      Location:100 → 409
      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 ...
      sd00039
      Location:145 → 187
      7WD40; WD40 repeat [structural motif]
      pfam08154
      Location:4 → 70
      NLE; NLE (NUC135) domain

    2. XM_017321861.2 → XP_017177350.1  ribosome biogenesis protein WDR12 isoform X1

      UniProtKB/Swiss-Prot
      Q9CST3, Q9JJA4, Q9JKF5
      UniProtKB/TrEMBL
      Q4V9X1
      Conserved Domains (3) summary
      cd00200
      Location:100 → 409
      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 ...
      sd00039
      Location:145 → 187
      7WD40; WD40 repeat [structural motif]
      pfam08154
      Location:4 → 70
      NLE; NLE (NUC135) domain

    3. XM_011238563.4 → XP_011236865.1  ribosome biogenesis protein WDR12 isoform X1

      See identical proteins and their annotated locations for XP_011236865.1

      UniProtKB/Swiss-Prot
      Q9CST3, Q9JJA4, Q9JKF5
      UniProtKB/TrEMBL
      Q4V9X1
      Conserved Domains (3) summary
      cd00200
      Location:100 → 409
      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 ...
      sd00039
      Location:145 → 187
      7WD40; WD40 repeat [structural motif]
      pfam08154
      Location:4 → 70
      NLE; NLE (NUC135) domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JJA4.1 GenPept UniProtKB/Swiss-Prot:Q9JJA4

    Gene LinkOut

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

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