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Aliases for TNRC6B Gene

Aliases for TNRC6B Gene

  • Trinucleotide Repeat Containing 6B 2 3 5
  • 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. Among its related pathways are RET signaling and Immune System. GO annotations related to this gene include poly(A) RNA binding and 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

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

Genomics for TNRC6B Gene

Regulatory Elements for TNRC6B Gene

Enhancers for TNRC6B Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH22F040235 0.8 FANTOM5 Ensembl ENCODE 19.3 +193.5 193451 5.9 HDGF PKNOX1 ARID4B SIN3A DMAP1 FEZF1 ZNF2 YY1 ZNF143 ZNF207 ADSL TNRC6B EP300 EP300-AS1 LOC100313968 RPL3 GRAP2 PIR42017 GC22P040255
GH22F040175 1 FANTOM5 ENCODE 13.4 +133.1 133118 5.6 PKNOX1 ARNT WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 EP300 ENSG00000272834 TAB1 ADSL TNRC6B SNORD83B LOC100313968 RPL3 PIR61047 RPL7P52
GH22F040067 0.2 Ensembl 12.6 +22.9 22884 0.2 CTCF CHD1 ZNF407 TBX21 ZBTB7A ZBTB40 GABPA POLR2H HDAC2 POLR2A TNRC6B GC22M041390
GH22F040070 0.5 Ensembl 12.5 +26.3 26284 0.6 GATA3 HLF JUNB PRDM1 NR2C2 TNRC6B ENSG00000261202 GC22M041390
GH22F040094 1.2 Ensembl ENCODE 12.3 +49.9 49875 1.0 NFYB IRF1 TNRC6B GC22M041390
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around TNRC6B on UCSC Golden Path with GeneCards custom track

Promoters for TNRC6B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000085652 283 2601 HDGF PKNOX1 SIN3A ARID4B DMAP1 YY1 ZNF143 ZNF207 FOS CEBPZ

Genomic Location for TNRC6B Gene

Chromosome:
22
Start:
40,044,817 bp from pter
End:
40,335,808 bp from pter
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

Protein Domains for TNRC6B Gene

Graphical View of Domain Structure for InterPro Entry

Q9UPQ9

UniProtKB/Swiss-Prot:

TNR6B_HUMAN :
  • Contains 1 RRM (RNA recognition motif) domain.
  • Belongs to the GW182 family.
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.
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.

Gene Ontology (GO) - Molecular Function for TNRC6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 17932509
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with TNRC6B: view

Phenotypes for TNRC6B Gene

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

Flow Cytometry 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
Jensen Localization Image for TNRC6B Gene 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 cytoplasmic mRNA processing body IEA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with TNRC6B: view

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

Transcripts for TNRC6B Gene

Unigene Clusters for TNRC6B Gene

Trinucleotide repeat containing 6B:
Representative Sequences:

Clone Products

Flow Cytometry 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 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, PaxDb, 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
genes like me logo Genes that share expression patterns with TNRC6B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt 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 35
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TNRC6B 34 35
  • 96.6 (n)
chimpanzee
(Pan troglodytes)
Mammalia TNRC6B 34
  • 96.15 (n)
cow
(Bos Taurus)
Mammalia TNRC6B 34 35
  • 95.36 (n)
mouse
(Mus musculus)
Mammalia Tnrc6b 34 16 35
  • 93.23 (n)
rat
(Rattus norvegicus)
Mammalia Tnrc6b 34
  • 93.17 (n)
oppossum
(Monodelphis domestica)
Mammalia TNRC6B 35
  • 86 (a)
OneToOne
chicken
(Gallus gallus)
Aves TNRC6B 34 35
  • 88.45 (n)
lizard
(Anolis carolinensis)
Reptilia TNRC6B 35
  • 76 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tnrc6b 34
  • 73.44 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.16482 34
zebrafish
(Danio rerio)
Actinopterygii tnrc6b 34
  • 53.89 (n)
si:dkey-46g23.1 35
  • 39 (a)
ManyToMany
wufa01f05 34
fruit fly
(Drosophila melanogaster)
Insecta gw 35
  • 21 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 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)

Paralogs for TNRC6B Gene

Paralogs for TNRC6B Gene

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

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 Sequence Context AA Info Type
rs1011667 -- 40,310,343(+) CTGCT(G/T)CTTCC intron-variant
rs1012241 -- 40,155,763(+) ttgaa(C/T)atctt intron-variant
rs1018807 -- 40,233,801(+) tactc(A/G)cttga intron-variant
rs10222225 -- 40,182,760(+) TGGTA(A/G)TTTTT intron-variant
rs10222231 -- 40,145,089(+) aaaat(A/T)ttttt 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)

Relevant External Links for TNRC6B Gene

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

Relevant External Links for TNRC6B

Genetic Association Database (GAD)
TNRC6B
Human Genome Epidemiology (HuGE) Navigator
TNRC6B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TNRC6B

No disorders were found for TNRC6B Gene.

No data available for MalaCards , 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 46 64
  2. Meta-analysis of genome-wide and replication association studies on prostate cancer. (PMID: 20690139) Liu H. … Han C. (Prostate 2011) 3 46 64
  3. A genome-wide association study identifies three loci associated with susceptibility to uterine fibroids. (PMID: 21460842) Cha P.C. … Nakamura Y. (Nat. Genet. 2011) 3 46 64
  4. GW182 proteins directly recruit cytoplasmic deadenylase complexes to miRNA targets. (PMID: 21981923) Braun J.E. … Izaurralde E. (Mol. Cell 2011) 3 4 64
  5. Sequence variants at 22q13 are associated with prostate cancer risk. (PMID: 19117981) Sun J. … Chang B.L. (Cancer Res. 2009) 3 46 64

Products for TNRC6B Gene

Sources for TNRC6B Gene

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