U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Tnrc6b trinucleotide repeat containing 6b [ Mus musculus (house mouse) ]

    Gene ID: 213988, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Tnrc6bprovided by MGI
    Official Full Name
    trinucleotide repeat containing 6bprovided by MGI
    Primary source
    MGI:MGI:2443730
    See related
    Ensembl:ENSMUSG00000047888 AllianceGenome:MGI:2443730
    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
    2700090M07Rik; A730065C02Rik; D230019K20Rik
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in miRNA-mediated post-transcriptional gene silencing; 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 with a positive effect on miRNA-mediated gene silencing by inhibition of translation. Predicted to be located in cytosol. Predicted to be active in P-body and nucleoplasm. Is expressed in lung. Human ortholog(s) of this gene implicated in subserous uterine fibroid and uterine fibroid. Orthologous to human TNRC6B (trinucleotide repeat containing adaptor 6B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 7.8), cerebellum adult (RPKM 5.1) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Tnrc6b in Genome Data Viewer
    Location:
    15 E1; 15 37.91 cM
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (80595514..80825287)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (80711313..80941086)

    Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene GRB2-related adaptor protein 2 Neighboring gene STARR-seq mESC enhancer starr_39236 Neighboring gene STARR-seq mESC enhancer starr_39237 Neighboring gene microRNA 6957 Neighboring gene RIKEN cDNA A430088P11 gene Neighboring gene family with sequence similarity 83, member F Neighboring gene STARR-positive B cell enhancer ABC_E608 Neighboring gene STARR-seq mESC enhancer starr_39239 Neighboring gene STARR-positive B cell enhancer ABC_E9421 Neighboring gene STARR-seq mESC enhancer starr_39241 Neighboring gene STARR-positive B cell enhancer ABC_E7395 Neighboring gene STARR-seq mESC enhancer starr_39242 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:80645405-80645514 Neighboring gene STARR-seq mESC enhancer starr_39245 Neighboring gene STARR-seq mESC enhancer starr_39246 Neighboring gene microRNA 5113 Neighboring gene predicted gene 6612 Neighboring gene adenylosuccinate lyase Neighboring gene STARR-seq mESC enhancer starr_39247 Neighboring gene small G protein signaling modulator 3 Neighboring gene predicted gene, 31462

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Ago-TNRC6 triggers microRNA-mediated decay by promoting two deadenylation steps. Chen CY, et al. Nat Struct Mol Biol, 2009 Nov. PMID 19838187, Free PMC Article
    2. Autism-like phenotype and risk gene mRNA deadenylation by CPEB4 mis-splicing. Parras A, et al. Nature, 2018 Aug. PMID 30111840, Free PMC Article
    3. Trinucleotide repeat containing 6c (TNRC6c) is essential for microvascular maturation during distal airspace sacculation in the developing lung. Guo H, et al. Dev Biol, 2017 Oct 1. PMID 28811219, Free PMC Article
    4. 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
    5. CHIP as a membrane-shuttling proteostasis sensor. Kopp Y, et al. Elife, 2017 Nov 1. PMID 29091030, Free PMC Article

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (4) 
    • Gene trapped (1) 

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC28739

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_positive_effect miRNA-mediated gene silencing by inhibition of translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_positive_effect miRNA-mediated gene silencing by inhibition of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in miRNA-mediated post-transcriptional gene silencing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of nuclear-transcribed mRNA poly(A) tail shortening ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulatory ncRNA-mediated gene silencing 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 P-body 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

    Go to the top of the page Help
    Preferred Names
    trinucleotide repeat-containing gene 6B protein

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_144812.3 → NP_659061.2  trinucleotide repeat-containing gene 6B protein isoform 1

      See identical proteins and their annotated locations for NP_659061.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and it encodes the longer protein (isoform 1).
      Source sequence(s)
      AC125540, AC126682
      Consensus CDS
      CCDS37146.1
      UniProtKB/Swiss-Prot
      Q80TK4, Q8BKI2
      Related
      ENSMUSP00000064336.8, ENSMUST00000067689.9
      Conserved Domains (4) summary
      cd12712
      Location:1624 → 1706
      RRM_TNRC6B; RNA recognition motif in vertebrate trinucleotide repeat-containing gene 6B protein (TNRC6B)
      pfam10427
      Location:979 → 1089
      Ago_hook; Argonaute hook
      pfam12938
      Location:1152 → 1247
      M_domain; M domain of GW182
      pfam16608
      Location:1341 → 1622
      TNRC6-PABC_bdg; TNRC6-PABC binding domain

    2. NM_177124.4 → NP_796098.3  trinucleotide repeat-containing gene 6B protein isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has multiple differences in the 5' UTR and 5' coding region but maintains the reading frame, compared to variant 1. This variant encodes isoform 2, which is shorter than isoform 1.
      Source sequence(s)
      AC125540, AC126682, AK162702, CK639087, CN699186, CN704499
      UniProtKB/TrEMBL
      Q3TRK2
      Conserved Domains (4) summary
      cd12712
      Location:1588 → 1670
      RRM_TNRC6B; RNA recognition motif in vertebrate trinucleotide repeat-containing gene 6B protein (TNRC6B)
      pfam10427
      Location:943 → 1053
      Ago_hook; Argonaute hook
      pfam12938
      Location:1116 → 1211
      M_domain; M domain of GW182
      pfam16608
      Location:1305 → 1586
      TNRC6-PABC_bdg; TNRC6-PABC binding domain

    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_000081.7 Reference GRCm39 C57BL/6J

      Range
      80595514..80825287
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BKI2.2 GenPept UniProtKB/Swiss-Prot:Q8BKI2

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous