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Aliases for TNRC6B Gene

Aliases for TNRC6B Gene

  • Trinucleotide Repeat Containing 6B 2 3 5
  • Trinucleotide Repeat-Containing Gene 6B Protein 3
  • KIAA1093 4

External Ids for TNRC6B Gene

Previous GeneCards Identifiers for TNRC6B Gene

  • GC22P038877
  • GC22P038770
  • GC22P040440
  • GC22P023404

Summaries for TNRC6B Gene

GeneCards Summary for TNRC6B Gene

TNRC6B (Trinucleotide Repeat Containing 6B) is a Protein Coding gene. Diseases associated with TNRC6B include Uterine Benign Neoplasm and Reproductive Organ Benign Neoplasm. Among its related pathways are Gene Expression and Cellular Senescence (REACTOME). Gene Ontology (GO) annotations related to this gene include nucleotide binding. An important paralog of this gene is TNRC6A.

UniProtKB/Swiss-Prot for TNRC6B Gene

  • Plays a role in RNA-mediated gene silencing by both micro-RNAs (miRNAs) and short interfering RNAs (siRNAs). Required for miRNA-dependent translational repression and siRNA-dependent endonucleolytic cleavage of complementary mRNAs by argonaute family proteins. As scaffoldng protein associates with argonaute proteins bound to partially complementary mRNAs and simultaneously can recruit CCR4-NOT and PAN deadenylase complexes.

Gene Wiki entry for TNRC6B Gene

Additional gene information for TNRC6B Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TNRC6B Gene

Genomics for TNRC6B Gene

GeneHancer (GH) Regulatory Elements for TNRC6B Gene

Promoters and enhancers for TNRC6B Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH22J040175 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 680.9 +133.1 133118 5.6 HDGF PKNOX1 FOXA2 SMAD1 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 TNRC6B EP300 ENSG00000272834 RPL3 SNORD83B ATF4 PIR61047 RPL7P52
GH22J040042 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 650.7 -0.6 -577 3.9 HDGF PKNOX1 FOXA2 SMAD1 ARNT ARID4B SIN3A DMAP1 YY1 POLR2B ENSG00000261202 TNRC6B DNAJB7 ADSL MIEF1 LOC100313968 PIR40250 GC22P040039 FAM83F
GH22J040046 Enhancer 0.6 ENCODE dbSUPER 650.7 +1.5 1495 0.2 ZBTB33 EGR2 TNRC6B ENSG00000261202 GC22M043022
GH22J039518 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 20.2 -520.4 -520434 12.3 MLX DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 ZNF548 SP3 ATF4 ENSG00000272834 RPL3 TAB1 ENSG00000230912 SNORD83B ENSG00000228274 CBY1 CBX6 TNRC6B
GH22J039315 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 21.1 -726.8 -726821 5.9 FEZF1 DMAP1 YY1 SLC30A9 ZNF213 ZNF143 SP3 NFYC ZFP41 SSRP1 RPL3 GC22M042519 GC22M042591 GC22M042958 PIR31798 SNORD139 SNORD43 CBX7 DDX17 SNORD83B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TNRC6B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TNRC6B gene promoter:
  • AREB6
  • CHOP-10
  • C/EBPalpha
  • STAT3
  • HTF
  • Pax-6
  • AP-4
  • S8
  • Arnt
  • AhR

Genomic Locations for TNRC6B Gene

Genomic Locations for TNRC6B Gene
chr22:40,044,817-40,335,808
(GRCh38/hg38)
Size:
290,992 bases
Orientation:
Plus strand
chr22:40,440,821-40,731,812
(GRCh37/hg19)
Size:
290,992 bases
Orientation:
Plus strand

Genomic View for TNRC6B Gene

Genes around TNRC6B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TNRC6B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TNRC6B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TNRC6B Gene

Proteins for TNRC6B Gene

  • Protein details for TNRC6B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UPQ9-TNR6B_HUMAN
    Recommended name:
    Trinucleotide repeat-containing gene 6B protein
    Protein Accession:
    Q9UPQ9
    Secondary Accessions:
    • B0QY73
    • B0QY78
    • B4DGC0
    • Q5TH52
    • Q8TBX2

    Protein attributes for TNRC6B Gene

    Size:
    1833 amino acids
    Molecular mass:
    194002 Da
    Quaternary structure:
    • Interacts with AGO1, AGO2, AGO3 and AGO4. Interacts with CNOT1; the interaction mediates the association with the CCR4-NOT complex. Interacts with PAN3; the interaction mediates the association with the PAN complex.
    SequenceCaution:
    • Sequence=BAA83045.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for TNRC6B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TNRC6B Gene

Post-translational modifications for TNRC6B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TNRC6B Gene

No data available for DME Specific Peptides for TNRC6B Gene

Domains & Families for TNRC6B Gene

Gene Families for TNRC6B Gene

Graphical View of Domain Structure for InterPro Entry

Q9UPQ9

UniProtKB/Swiss-Prot:

TNR6B_HUMAN :
  • Belongs to the GW182 family.
Family:
  • Belongs to the GW182 family.
genes like me logo Genes that share domains with TNRC6B: view

Function for TNRC6B Gene

Molecular function for TNRC6B Gene

UniProtKB/Swiss-Prot Function:
Plays a role in RNA-mediated gene silencing by both micro-RNAs (miRNAs) and short interfering RNAs (siRNAs). Required for miRNA-dependent translational repression and siRNA-dependent endonucleolytic cleavage of complementary mRNAs by argonaute family proteins. As scaffoldng protein associates with argonaute proteins bound to partially complementary mRNAs and simultaneously can recruit CCR4-NOT and PAN deadenylase complexes.

Phenotypes From GWAS Catalog for TNRC6B Gene

Gene Ontology (GO) - Molecular Function for TNRC6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding HDA,IEA 22658674
GO:0005515 protein binding IPI 17932509
genes like me logo Genes that share ontologies with TNRC6B: view
genes like me logo Genes that share phenotypes with TNRC6B: view

Animal Model Products

miRNA for TNRC6B Gene

miRTarBase miRNAs that target TNRC6B

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TNRC6B Gene

Localization for TNRC6B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TNRC6B Gene

Cytoplasm, P-body. Note=Mammalian P-bodies are also known as GW bodies (GWBs).

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TNRC6B gene
Compartment Confidence
cytosol 5
nucleus 3

Gene Ontology (GO) - Cellular Components for TNRC6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 P-body IEA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with TNRC6B: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TNRC6B Gene

Pathways & Interactions for TNRC6B Gene

genes like me logo Genes that share pathways with TNRC6B: view

Gene Ontology (GO) - Biological Process for TNRC6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006417 regulation of translation IEA --
GO:0007223 Wnt signaling pathway, calcium modulating pathway TAS --
GO:0031047 gene silencing by RNA IMP 19716330
GO:0035194 posttranscriptional gene silencing by RNA TAS --
GO:0035278 miRNA mediated inhibition of translation IEA --
genes like me logo Genes that share ontologies with TNRC6B: view

No data available for SIGNOR curated interactions for TNRC6B Gene

Drugs & Compounds for TNRC6B Gene

No Compound Related Data Available

Transcripts for TNRC6B Gene

mRNA/cDNA for TNRC6B Gene

Unigene Clusters for TNRC6B Gene

Trinucleotide repeat containing 6B:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TNRC6B Gene

No ASD Table

Relevant External Links for TNRC6B Gene

GeneLoc Exon Structure for
TNRC6B
ECgene alternative splicing isoforms for
TNRC6B

Expression for TNRC6B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TNRC6B Gene

Protein differential expression in normal tissues from HIPED for TNRC6B Gene

This gene is overexpressed in Testis (15.4), Peripheral blood mononuclear cells (14.6), and Lung (14.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for TNRC6B Gene



Protein tissue co-expression partners for TNRC6B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TNRC6B Gene:

TNRC6B

SOURCE GeneReport for Unigene cluster for TNRC6B Gene:

Hs.372082

Evidence on tissue expression from TISSUES for TNRC6B Gene

  • Nervous system(4.5)
  • Liver(4.2)
genes like me logo Genes that share expression patterns with TNRC6B: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TNRC6B Gene

Orthologs for TNRC6B Gene

This gene was present in the common ancestor of animals.

Orthologs for TNRC6B Gene

Organism Taxonomy Gene Similarity Type Details
platypus
(Ornithorhynchus anatinus)
Mammalia TNRC6B 34
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TNRC6B 34 33
  • 96.6 (n)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TNRC6B 33
  • 96.15 (n)
cow
(Bos Taurus)
Mammalia TNRC6B 34 33
  • 95.36 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Tnrc6b 16 34 33
  • 93.23 (n)
rat
(Rattus norvegicus)
Mammalia Tnrc6b 33
  • 93.17 (n)
oppossum
(Monodelphis domestica)
Mammalia TNRC6B 34
  • 86 (a)
OneToOne
chicken
(Gallus gallus)
Aves TNRC6B 34 33
  • 88.45 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TNRC6B 34
  • 76 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tnrc6b 33
  • 73.44 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.16482 33
zebrafish
(Danio rerio)
Actinopterygii tnrc6b 33
  • 53.89 (n)
si:dkey-46g23.1 34
  • 39 (a)
ManyToMany
wufa01f05 33
fruit fly
(Drosophila melanogaster)
Insecta gw 34
  • 21 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 35 (a)
OneToMany
Species where no ortholog for TNRC6B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TNRC6B Gene

ENSEMBL:
Gene Tree for TNRC6B (if available)
TreeFam:
Gene Tree for TNRC6B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TNRC6B: view image

Paralogs for TNRC6B Gene

Paralogs for TNRC6B Gene

(2) SIMAP similar genes for TNRC6B Gene using alignment to 4 proteins:

  • TNR6B_HUMAN
  • B0QYM5_HUMAN
  • H0Y720_HUMAN
  • L8E721_HUMAN
genes like me logo Genes that share paralogs with TNRC6B: view

Variants for TNRC6B Gene

Sequence variations from dbSNP and Humsavar for TNRC6B Gene

SNP ID Clin Chr 22 pos Variation AA Info Type
rs1000001110 -- 40,101,474(+) A/G genic_upstream_transcript_variant, intron_variant
rs1000002209 -- 40,268,436(+) T/TT intron_variant
rs1000003209 -- 40,317,471(+) G/A intron_variant
rs1000012266 -- 40,187,861(+) T/G intron_variant
rs1000016286 -- 40,138,004(+) G/A genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for TNRC6B Gene

Variant ID Type Subtype PubMed ID
dgv1317e212 CNV loss 25503493
dgv1318e212 CNV loss 25503493
dgv8108n54 CNV loss 21841781
dgv8109n54 CNV loss 21841781
dgv8110n54 CNV loss 21841781
esv2664821 CNV deletion 23128226
esv2673765 CNV deletion 23128226
esv2724263 CNV deletion 23290073
esv27289 CNV loss 19812545
esv3396051 CNV insertion 20981092
esv3558174 CNV deletion 23714750
esv3568401 CNV loss 25503493
esv3647772 CNV loss 21293372
esv3647773 CNV loss 21293372
nsv1073163 CNV deletion 25765185
nsv1118953 CNV deletion 24896259
nsv191489 CNV deletion 16902084
nsv3630 CNV deletion 18451855
nsv478479 CNV novel sequence insertion 20440878
nsv589034 CNV loss 21841781
nsv589035 CNV loss 21841781
nsv589036 CNV loss 21841781
nsv589045 CNV loss 21841781
nsv829231 CNV loss 20364138
nsv834201 CNV gain 17160897
nsv834202 CNV loss 17160897
nsv962795 CNV duplication 23825009

Variation tolerance for TNRC6B Gene

Residual Variation Intolerance Score: 3.22% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.67; 86.43% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TNRC6B Gene

Human Gene Mutation Database (HGMD)
TNRC6B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TNRC6B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TNRC6B Gene

Disorders for TNRC6B Gene

MalaCards: The human disease database

(2) MalaCards diseases for TNRC6B Gene - From: HGMD and DISEASES

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for TNRC6B

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with TNRC6B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TNRC6B Gene

Publications for TNRC6B Gene

  1. A genome-wide search for loci interacting with known prostate cancer risk-associated genetic variants. (PMID: 22219177) Tao S … Sun J (Carcinogenesis 2012) 3 44 58
  2. A genome-wide association study identifies three loci associated with susceptibility to uterine fibroids. (PMID: 21460842) Cha PC … Nakamura Y (Nature genetics 2011) 3 44 58
  3. GW182 proteins directly recruit cytoplasmic deadenylase complexes to miRNA targets. (PMID: 21981923) Braun JE … Izaurralde E (Molecular cell 2011) 3 4 58
  4. Meta-analysis of genome-wide and replication association studies on prostate cancer. (PMID: 20690139) Liu H … Han C (The Prostate 2011) 3 44 58
  5. Importin 8 is a gene silencing factor that targets argonaute proteins to distinct mRNAs. (PMID: 19167051) Weinmann L … Meister G (Cell 2009) 3 4 58

Products for TNRC6B Gene

Sources for TNRC6B Gene

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