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

Gene ID: 213988, updated on 2-Nov-2024

Summary

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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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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. 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

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Alleles

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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

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Preferred Names
trinucleotide repeat-containing gene 6B protein

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_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

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