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    Tnrc6c trinucleotide repeat containing adaptor 6C [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303774, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Tnrc6cprovided by RGD
    Official Full Name
    trinucleotide repeat containing adaptor 6Cprovided by RGD
    Primary source
    RGD:1310027
    See related
    Ensembl:ENSRNOG00000022395 AllianceGenome:RGD:1310027
    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
    Also known as
    RGD1310027
    Summary
    Predicted to enable nucleic acid binding activity. Predicted to be involved in gene silencing by miRNA; positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay; and positive regulation of nuclear-transcribed mRNA poly(A) tail shortening. Predicted to act upstream of or within embryonic hemopoiesis; endoderm formation; and regulation of gene silencing by miRNA. Predicted to be located in cytosol. Predicted to be active in P-body and nucleoplasm. Orthologous to human TNRC6C (trinucleotide repeat containing adaptor 6C). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 103.1), Heart (RPKM 82.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tnrc6c in Genome Data Viewer
    Location:
    10q32.2
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (103367498..103478246)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (102908958..102979543)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (106698359..106763639)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102546977 Neighboring gene uncharacterized LOC100912319 Neighboring gene transmembrane channel like 6 Neighboring gene transmembrane channel-like 8

    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. miRNA-mediated deadenylation is orchestrated by GW182 through two conserved motifs that interact with CCR4-NOT. Fabian MR, et al. Nat Struct Mol Biol, 2011 Oct 7. PMID 21984185
    2. The interactions of GW182 proteins with PABP and deadenylases are required for both translational repression and degradation of miRNA targets. Huntzinger E, et al. Nucleic Acids Res, 2013 Jan. PMID 23172285, Free PMC Article
    3. Trinucleotide repeat containing 6a (Tnrc6a)-mediated microRNA function is required for development of yolk sac endoderm. Jiang Z, et al. J Biol Chem, 2012 Feb 17. PMID 22187428, Free PMC Article
    4. 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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within embryonic hemopoiesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within embryonic organ development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within endoderm development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within endoderm formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within lung saccule development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in miRNA-mediated post-transcriptional gene silencing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in miRNA-mediated post-transcriptional gene silencing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of nuclear-transcribed mRNA poly(A) tail shortening IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of nuclear-transcribed mRNA poly(A) tail shortening ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of miRNA-mediated gene silencing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within transforming growth factor beta receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    trinucleotide repeat-containing gene 6C protein
    Names
    trinucleotide repeat containing 6C

    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_001427499.1 → NP_001414428.1  trinucleotide repeat-containing gene 6C protein

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010

    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_086028.1 Reference GRCr8

      Range
      103367498..103478246
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063269255.1 → XP_063125325.1  trinucleotide repeat-containing gene 6C protein isoform X1

    2. XM_063269256.1 → XP_063125326.1  trinucleotide repeat-containing gene 6C protein isoform X2

    3. XM_039087487.2 → XP_038943415.2  trinucleotide repeat-containing gene 6C protein isoform X5

    4. XM_063269261.1 → XP_063125331.1  trinucleotide repeat-containing gene 6C protein isoform X6

    5. XM_063269257.1 → XP_063125327.1  trinucleotide repeat-containing gene 6C protein isoform X3

    6. XM_063269259.1 → XP_063125329.1  trinucleotide repeat-containing gene 6C protein isoform X4

      UniProtKB/TrEMBL
      D3ZRA6

    7. XM_063269258.1 → XP_063125328.1  trinucleotide repeat-containing gene 6C protein isoform X4

      UniProtKB/TrEMBL
      D3ZRA6

    8. XM_017597754.3 → XP_017453243.2  trinucleotide repeat-containing gene 6C protein isoform X4

      UniProtKB/TrEMBL
      A0A8I6GBB3, D3ZRA6
      Related
      ENSRNOP00000049430.6
      Conserved Domains (5) summary
      cd14283
      Location:1147 → 1184
      UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
      pfam10427
      Location:1035 → 1150
      Ago_hook; Argonaute hook
      pfam12938
      Location:1235 → 1460
      M_domain; M domain of GW182
      pfam16608
      Location:1469 → 1723
      TNRC6-PABC_bdg; TNRC6-PABC binding domain
      cd12713
      Location:1719 → 1806
      RRM_TNRC6C; RNA recognition motif (RRM) found in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C)

    9. XM_063269262.1 → XP_063125332.1  trinucleotide repeat-containing gene 6C protein isoform X7

    10. XM_063269263.1 → XP_063125333.1  trinucleotide repeat-containing gene 6C protein isoform X7

    11. XM_063269260.1 → XP_063125330.1  trinucleotide repeat-containing gene 6C protein isoform X4

      UniProtKB/TrEMBL
      D3ZRA6

    12. XM_063269264.1 → XP_063125334.1  trinucleotide repeat-containing gene 6C protein isoform X7

    13. XM_039087488.2 → XP_038943416.1  trinucleotide repeat-containing gene 6C protein isoform X8

      Conserved Domains (5) summary
      cd14283
      Location:135 → 172
      UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
      pfam10427
      Location:23 → 138
      Ago_hook; Argonaute hook
      pfam12938
      Location:223 → 448
      M_domain; M domain of GW182
      pfam16608
      Location:457 → 711
      TNRC6-PABC_bdg; TNRC6-PABC binding domain
      cd12713
      Location:707 → 794
      RRM_TNRC6C; RNA recognition motif (RRM) found in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C)

    14. XM_063269265.1 → XP_063125335.1  trinucleotide repeat-containing gene 6C protein isoform X9

    Nucleotide Protein Strain
    Heading Accession and Version

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