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    Zc3h13 zinc finger CCCH type containing 13 [ Mus musculus (house mouse) ]

    Gene ID: 67302, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Zc3h13provided by MGI
    Official Full Name
    zinc finger CCCH type containing 13provided by MGI
    Primary source
    MGI:MGI:1914552
    See related
    Ensembl:ENSMUSG00000022000 AllianceGenome:MGI:1914552
    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
    2600010B19Rik; 3110050K21Rik; 4930570G11Rik
    Summary
    Predicted to enable metal ion binding activity. Involved in regulation of stem cell population maintenance. Located in nuclear speck. Part of RNA N6-methyladenosine methyltransferase complex. Is expressed in early conceptus; inner cell mass; and oocyte. Orthologous to human ZC3H13 (zinc finger CCCH-type containing 13). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 8.3), frontal lobe adult (RPKM 5.8) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zc3h13 in Genome Data Viewer
    Location:
    14 D3; 14 39.8 cM
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (75521746..75581873)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (75284306..75344433)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene predicted gene 15628 Neighboring gene lymphocyte cytosolic protein 1 Neighboring gene STARR-positive B cell enhancer mm9_chr14:75576489-75576789 Neighboring gene STARR-seq mESC enhancer starr_37136 Neighboring gene STARR-positive B cell enhancer ABC_E4120 Neighboring gene STARR-positive B cell enhancer ABC_E8899 Neighboring gene STARR-positive B cell enhancer ABC_E7338 Neighboring gene predicted gene, 35679 Neighboring gene STARR-positive B cell enhancer ABC_E7339 Neighboring gene carboxypeptidase B2 Neighboring gene ribosomal protein L17 pseudogene Neighboring gene STARR-seq mESC enhancer starr_37139 Neighboring gene predicted gene, 46470 Neighboring gene STARR-seq mESC enhancer starr_37142 Neighboring gene CapStarr-seq enhancer MGSCv37_chr14:75845484-75845692 Neighboring gene predicted gene, 41212 Neighboring gene siah E3 ubiquitin protein ligase family member 3 Neighboring gene predicted gene, 35966

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Zc3h13 Regulates Nuclear RNA m(6)A Methylation and Mouse Embryonic Stem Cell Self-Renewal. Wen J, et al. Mol Cell, 2018 Mar 15. PMID 29547716, Free PMC Article
    2. Zc3h13/Flacc is required for adenosine methylation by bridging the mRNA-binding factor Rbm15/Spenito to the m(6)A machinery component Wtap/Fl(2)d. Knuckles P, et al. Genes Dev, 2018 Mar 1. PMID 29535189, Free PMC Article
    3. The interactome of CLUH reveals its association to SPAG5 and its co-translational proximity to mitochondrial proteins. Hémono M, et al. BMC Biol, 2022 Jan 10. PMID 35012549, Free PMC Article
    4. Chemical Crosslinking Mass Spectrometry Analysis of Protein Conformations and Supercomplexes in Heart Tissue. Chavez JD, et al. Cell Syst, 2018 Jan 24. PMID 29199018, Free PMC Article
    5. New roles for the de-ubiquitylating enzyme OTUD4 in an RNA-protein network and RNA granules. Das R, et al. J Cell Sci, 2019 Jun 17. PMID 31138677, Free PMC Article

    See all (30) 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)
    • Endonuclease-mediated (4) 

    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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of stem cell population maintenance IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of RNA N6-methyladenosine methyltransferase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of RNA N6-methyladenosine methyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    zinc finger CCCH domain-containing protein 13

    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_001359875.1 → NP_001346804.1  zinc finger CCCH domain-containing protein 13 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AW536655, BC082576, BC138264, BY127373
      Consensus CDS
      CCDS88715.1
      UniProtKB/TrEMBL
      A0A2I3BPQ5
      Related
      ENSMUSP00000153882.2, ENSMUST00000227049.2
      Conserved Domains (1) summary
      pfam00642
      Location:42 → 62
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

    2. NM_026083.2 → NP_080359.2  zinc finger CCCH domain-containing protein 13 isoform 2

      See identical proteins and their annotated locations for NP_080359.2

      Status: VALIDATED

      Source sequence(s)
      AK078225, AW536655, BB619434, BC038882, BG062845, CAAA01056772, CF731340, CF742012
      Consensus CDS
      CCDS27278.1
      UniProtKB/Swiss-Prot
      B9EHN9, E9Q784
      Related
      ENSMUSP00000022577.6, ENSMUST00000022577.6
      Conserved Domains (1) summary
      pfam00642
      Location:42 → 62
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

    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_000080.7 Reference GRCm39 C57BL/6J

      Range
      75521746..75581873
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006519447.5 → XP_006519510.1  zinc finger CCCH domain-containing protein 13 isoform X3

      See identical proteins and their annotated locations for XP_006519510.1

      UniProtKB/Swiss-Prot
      B9EHN9, E9Q784
      Conserved Domains (1) summary
      pfam00642
      Location:42 → 62
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

    2. XM_030247971.2 → XP_030103831.1  zinc finger CCCH domain-containing protein 13 isoform X2

      UniProtKB/TrEMBL
      A0A2I3BPQ5
      Conserved Domains (1) summary
      pfam00642
      Location:42 → 62
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

    3. XM_011245157.4 → XP_011243459.1  zinc finger CCCH domain-containing protein 13 isoform X4

    4. XM_006519446.5 → XP_006519509.1  zinc finger CCCH domain-containing protein 13 isoform X2

      See identical proteins and their annotated locations for XP_006519509.1

      UniProtKB/TrEMBL
      A0A2I3BPQ5
      Conserved Domains (1) summary
      pfam00642
      Location:42 → 62
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

    5. XM_036158826.1 → XP_036014719.1  zinc finger CCCH domain-containing protein 13 isoform X1

      Conserved Domains (1) summary
      pfam00642
      Location:42 → 63
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_027377.1: Suppressed sequence

      Description
      NM_027377.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    E9Q784.1 GenPept UniProtKB/Swiss-Prot:E9Q784

    Gene LinkOut

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

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