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    Ttc39c tetratricopeptide repeat domain 39C [ Mus musculus (house mouse) ]

    Gene ID: 72747, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Ttc39cprovided by MGI
    Official Full Name
    tetratricopeptide repeat domain 39Cprovided by MGI
    Primary source
    MGI:MGI:1919997
    See related
    Ensembl:ENSMUSG00000024424 AllianceGenome:MGI:1919997
    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
    1700008N02Rik; 2810439F02Rik
    Summary
    Predicted to be involved in cilium assembly and otolith morphogenesis. Is expressed in adrenal medulla; clavicle; naris; nervous system; and seminiferous cord. Orthologous to human TTC39C (tetratricopeptide repeat domain 39C). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in liver adult (RPKM 14.3), testis adult (RPKM 14.1) and 26 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    18 A1; 18 6.71 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (12716168..12872461)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (12583103..12739404)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene laminin, alpha 3 Neighboring gene STARR-positive B cell enhancer ABC_E8704 Neighboring gene predicted gene, 36232 Neighboring gene STARR-seq mESC enhancer starr_43837 Neighboring gene predicted gene 29200 Neighboring gene STARR-seq mESC enhancer starr_43839 Neighboring gene STARR-seq mESC enhancer starr_43841 Neighboring gene STARR-seq mESC enhancer starr_43842 Neighboring gene predicted gene, 41668 Neighboring gene microRNA 1948 Neighboring gene NSA2 ribosome biogenesis homolog pseudogene Neighboring gene oxysterol binding protein-like 1A Neighboring gene calcium binding tyrosine phosphorylation regulated Neighboring gene predicted gene, 52343

    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. Ttc39c is upregulated during skeletal muscle atrophy and modulates ERK1/2 MAP kinase and hedgehog signaling. Hayes CS, et al. J Cell Physiol, 2019 Dec. PMID 31188487
    2. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    3. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
    4. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

    See all (17) 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 (1) 

    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 molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in cilium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in otolith morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    tetratricopeptide repeat protein 39C
    Names
    TPR repeat protein 39C

    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_028341.5 → NP_082617.2  tetratricopeptide repeat protein 39C

      See identical proteins and their annotated locations for NP_082617.2

      Status: VALIDATED

      Source sequence(s)
      AC102055, AC139027
      Consensus CDS
      CCDS29065.1
      UniProtKB/Swiss-Prot
      Q8VE09, Q9CYV6
      UniProtKB/TrEMBL
      A0A3Q4EGC9
      Related
      ENSMUSP00000157144.2, ENSMUST00000234966.2
      Conserved Domains (1) summary
      pfam10300
      Location:31 → 495
      DUF3808; Protein of unknown function (DUF3808)

    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_000084.7 Reference GRCm39 C57BL/6J

      Range
      12716168..12872461
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030250614.2 → XP_030106474.1  tetratricopeptide repeat protein 39C isoform X1

      UniProtKB/Swiss-Prot
      Q8VE09, Q9CYV6
      UniProtKB/TrEMBL
      E9PV21, G3X8X1
      Related
      ENSMUSP00000133127.2, ENSMUST00000169401.8
      Conserved Domains (1) summary
      pfam10300
      Location:1 → 437
      DUF3808; Protein of unknown function (DUF3808)

    2. XM_030250615.2 → XP_030106475.1  tetratricopeptide repeat protein 39C isoform X2

      Conserved Domains (1) summary
      pfam10300
      Location:1 → 181
      DUF3808; Protein of unknown function (DUF3808)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VE09.2 GenPept UniProtKB/Swiss-Prot:Q8VE09

    Gene LinkOut

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

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