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

Gene ID: 57750, updated on 5-Mar-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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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)
  • Targeted (2) 
  • Endonuclease-mediated (1) 

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

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