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    Ttc39c tetratricopeptide repeat domain 39C [ Rattus norvegicus (Norway rat) ]

    Gene ID: 686179, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ttc39cprovided by RGD
    Official Full Name
    tetratricopeptide repeat domain 39Cprovided by RGD
    Primary source
    RGD:1585423
    See related
    EnsemblRapid:ENSRNOG00000050949 AllianceGenome:RGD:1585423
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in cilium assembly and otolith morphogenesis. Orthologous to human TTC39C (tetratricopeptide repeat domain 39C). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 118.7), Heart (RPKM 75.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ttc39c in Genome Data Viewer
    Location:
    18p13
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (4043364..4162660)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (3768802..3887932)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (3958424..4080028)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene laminin subunit alpha 3 Neighboring gene uncharacterized LOC120098331 Neighboring gene ATP synthase subunit g, mitochondrial-like Neighboring gene U2 spliceosomal RNA Neighboring gene uncharacterized LOC134482905 Neighboring gene uncharacterized LOC134482904 Neighboring gene oxysterol binding protein-like 1A Neighboring gene calcium binding tyrosine phosphorylation regulated Neighboring gene oxysterol binding protein-like 1A like

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC125239

    Gene Ontology Provided by RGD

    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
    		  

    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_001077231.1 → NP_001070699.1  tetratricopeptide repeat protein 39C isoform 1

      See identical proteins and their annotated locations for NP_001070699.1

      Status: PROVISIONAL

      Source sequence(s)
      BC105623
      UniProtKB/Swiss-Prot
      Q0VGK2
      UniProtKB/TrEMBL
      A0A0G2JXC8, A6KLR6
      Conserved Domains (1) summary
      pfam10300
      Location:1 → 437
      DUF3808; Protein of unknown function (DUF3808)

    2. NM_001415714.1 → NP_001402643.1  tetratricopeptide repeat protein 39C isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/TrEMBL
      A0A0G2JXC8, A0A8L2QW35
      Related
      ENSRNOP00000064542.3, ENSRNOT00000073509.4

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086036.1 Reference GRCr8

      Range
      4043364..4162660
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063277592.1 → XP_063133662.1  tetratricopeptide repeat protein 39C isoform X1

      UniProtKB/Swiss-Prot
      Q0VGK2
      UniProtKB/TrEMBL
      A0A0G2JXC8, A6KLR6

    2. XM_063277593.1 → XP_063133663.1  tetratricopeptide repeat protein 39C isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0VGK2.1 GenPept UniProtKB/Swiss-Prot:Q0VGK2

    Gene LinkOut

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

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