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

Gene ID: 686179, updated on 27-Nov-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, Nov 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
    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
    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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