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TNRC6A trinucleotide repeat containing adaptor 6A [ Homo sapiens (human) ]

Gene ID: 27327, updated on 13-Mar-2020

Summary

Official Symbol
TNRC6Aprovided by HGNC
Official Full Name
trinucleotide repeat containing adaptor 6Aprovided by HGNC
Primary source
HGNC:HGNC:11969
See related
Ensembl:ENSG00000090905 MIM:610739
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
GW1; FAME6; GW182; TNRC6; CAGH26
Summary
This gene encodes a member of the trinucleotide repeat containing 6 protein family. The protein functions in post-transcriptional gene silencing through the RNA interference (RNAi) and microRNA pathways. The protein associates with messenger RNAs and Argonaute proteins in cytoplasmic bodies known as GW-bodies or P-bodies. Inhibiting expression of this gene delocalizes other GW-body proteins and impairs RNAi and microRNA-induced gene silencing. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in ovary (RPKM 11.5), endometrium (RPKM 10.0) and 25 other tissues See more
Orthologs

Genomic context

See TNRC6A in Genome Data Viewer
Location:
16p12.1
Exon count:
28
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (24610205..24826223)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (24741028..24837548)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene RB binding protein 6, ubiquitin ligase Neighboring gene acyl-CoA-binding domain-containing protein 7-like Neighboring gene long intergenic non-protein coding RNA 1567 Neighboring gene uncharacterized LOC107984825 Neighboring gene solute carrier family 5 member 11

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
EPILEPSY, FAMILIAL ADULT MYOCLONIC, 6
MedGen: C4748079 OMIM: 618074 GeneReviews: Not available
Compare labs

NHGRI GWAS Catalog

Description
Exploring genome-wide - dietary heme iron intake interactions and the risk of type 2 diabetes.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Nef nef HIV-1 Nef inhibits the sorting of GW182 into exosomes, leading to affect assembly and turnover of the miRNA-induced silencing complex (miRISC) PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ22043, KIAA1460, MGC75384, DKFZp666E117

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
Wnt signaling pathway, calcium modulating pathway TAS
Traceable Author Statement
more info
 
cellular response to starvation IEA
Inferred from Electronic Annotation
more info
 
gene silencing by miRNA IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
gene silencing by miRNA IMP
Inferred from Mutant Phenotype
more info
PubMed 
miRNA mediated inhibition of translation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of gene expression TAS
Traceable Author Statement
more info
 
positive regulation of gene expression TAS
Traceable Author Statement
more info
 
positive regulation of nuclear-transcribed mRNA poly(A) tail shortening IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
posttranscriptional gene silencing by RNA TAS
Traceable Author Statement
more info
 
regulation of gene silencing by miRNA TAS
Traceable Author Statement
more info
 
regulation of megakaryocyte differentiation TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
 
P-body IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
P-body IDA
Inferred from Direct Assay
more info
PubMed 
RISC complex IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
trinucleotide repeat-containing gene 6A protein
Names
CAG repeat protein 26
CTD-2540M10.1
EDIE
EMSY interactor protein
GW182 autoantigen
glycine-tryptophan protein of 182 kDa
trinucleotide repeat containing 6A

NCBI Reference Sequences (RefSeq)

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_001330520.3NP_001317449.1  trinucleotide repeat-containing gene 6A protein isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC002565, AC008731, BU743266
    Consensus CDS
    CCDS81959.1
    UniProtKB/Swiss-Prot
    Q8NDV7
    Related
    ENSP00000326900.7, ENST00000315183.11
    Conserved Domains (4) summary
    cd12711
    Location:17311813
    RRM_TNRC6A; RNA recognition motif in vertebrate GW182 autoantigen
    pfam10427
    Location:10691200
    Ago_hook; Argonaute hook
    pfam12938
    Location:12801411
    M_domain; M domain of GW182
    pfam16608
    Location:14551730
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
  2. NM_001351850.2NP_001338779.1  trinucleotide repeat-containing gene 6A protein isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC008731, AC010321
    Conserved Domains (4) summary
    cd12711
    Location:17401822
    RRM_TNRC6A; RNA recognition motif in vertebrate GW182 autoantigen
    pfam10427
    Location:10841209
    Ago_hook; Argonaute hook
    pfam12938
    Location:12651373
    M_domain; M domain of GW182
    pfam16608
    Location:14641727
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
  3. NM_014494.4NP_055309.2  trinucleotide repeat-containing gene 6A protein isoform 1

    See identical proteins and their annotated locations for NP_055309.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC002565, AC008731, AJ492221, BE158958, BU743266
    Consensus CDS
    CCDS10624.2
    UniProtKB/Swiss-Prot
    Q8NDV7
    Related
    ENSP00000379144.3, ENST00000395799.8
    Conserved Domains (4) summary
    cd12711
    Location:17801862
    RRM_TNRC6A; RNA recognition motif in vertebrate GW182 autoantigen
    pfam10427
    Location:10691200
    Ago_hook; Argonaute hook
    pfam12938
    Location:12951413
    M_domain; M domain of GW182
    pfam16608
    Location:15041779
    TNRC6-PABC_bdg; TNRC6-PABC binding domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    24610205..24826223
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024450231.1XP_024305999.1  trinucleotide repeat-containing gene 6A protein isoform X1

    Conserved Domains (4) summary
    cd12711
    Location:17891871
    RRM_TNRC6A; RNA recognition motif in vertebrate GW182 autoantigen
    pfam10427
    Location:10841209
    Ago_hook; Argonaute hook
    pfam12938
    Location:13041422
    M_domain; M domain of GW182
    pfam16608
    Location:15131776
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
  2. XM_017023145.2XP_016878634.1  trinucleotide repeat-containing gene 6A protein isoform X3

  3. XM_017023150.2XP_016878639.1  trinucleotide repeat-containing gene 6A protein isoform X7

  4. XM_024450232.1XP_024306000.1  trinucleotide repeat-containing gene 6A protein isoform X6

    Conserved Domains (4) summary
    cd12711
    Location:17291811
    RRM_TNRC6A; RNA recognition motif in vertebrate GW182 autoantigen
    pfam10427
    Location:10841198
    Ago_hook; Argonaute hook
    pfam12938
    Location:12541362
    M_domain; M domain of GW182
    pfam16608
    Location:14531716
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
  5. XM_017023148.2XP_016878637.1  trinucleotide repeat-containing gene 6A protein isoform X5

  6. XM_017023144.2XP_016878633.1  trinucleotide repeat-containing gene 6A protein isoform X2

  7. XM_017023152.2XP_016878641.1  trinucleotide repeat-containing gene 6A protein isoform X9

  8. XM_024450233.1XP_024306001.1  trinucleotide repeat-containing gene 6A protein isoform X8

    Conserved Domains (3) summary
    cd12711
    Location:16811763
    RRM_TNRC6A; RNA recognition motif in vertebrate GW182 autoantigen
    pfam12938
    Location:12061314
    M_domain; M domain of GW182
    pfam16608
    Location:14051668
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
  9. XM_017023146.1XP_016878635.1  trinucleotide repeat-containing gene 6A protein isoform X4

  10. XM_017023153.1XP_016878642.1  trinucleotide repeat-containing gene 6A protein isoform X10

    UniProtKB/Swiss-Prot
    Q8NDV7
    Conserved Domains (4) summary
    cd12711
    Location:15271609
    RRM_TNRC6A; RNA recognition motif in vertebrate GW182 autoantigen
    pfam10427
    Location:816947
    Ago_hook; Argonaute hook
    pfam12938
    Location:10421160
    M_domain; M domain of GW182
    pfam16608
    Location:12511526
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
  11. XM_017023154.1XP_016878643.1  trinucleotide repeat-containing gene 6A protein isoform X11

  12. XM_005255257.4XP_005255314.1  trinucleotide repeat-containing gene 6A protein isoform X10

    See identical proteins and their annotated locations for XP_005255314.1

    UniProtKB/Swiss-Prot
    Q8NDV7
    Conserved Domains (4) summary
    cd12711
    Location:15271609
    RRM_TNRC6A; RNA recognition motif in vertebrate GW182 autoantigen
    pfam10427
    Location:816947
    Ago_hook; Argonaute hook
    pfam12938
    Location:10421160
    M_domain; M domain of GW182
    pfam16608
    Location:12511526
    TNRC6-PABC_bdg; TNRC6-PABC binding domain

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_021160019.1 Reference GRCh38.p13 PATCHES

    Range
    1423..76918
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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