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Aliases for TNRC6C Gene

Aliases for TNRC6C Gene

  • Trinucleotide Repeat Containing 6C 2 3
  • KIAA1582 4 6

External Ids for TNRC6C Gene

Previous GeneCards Identifiers for TNRC6C Gene

  • GC17P073557
  • GC17P076002
  • GC17P071424

Summaries for TNRC6C Gene

GeneCards Summary for TNRC6C Gene

TNRC6C (Trinucleotide Repeat Containing 6C) is a Protein Coding gene. Among its related pathways are PI-3K cascade and PI-3K cascade. GO annotations related to this gene include RNA binding and nucleotide binding. An important paralog of this gene is TNRC6A.

UniProtKB/Swiss-Prot for TNRC6C Gene

  • Plays a role in RNA-mediated gene silencing by micro-RNAs (miRNAs). Required for miRNA-dependent translational repression 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.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TNRC6C Gene

Genomics for TNRC6C Gene

Regulatory Elements for TNRC6C Gene

Genomic Location for TNRC6C Gene

Start:
78,004,113 bp from pter
End:
78,108,835 bp from pter
Size:
104,723 bases
Orientation:
Plus strand

Genomic View for TNRC6C Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TNRC6C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TNRC6C Gene

Proteins for TNRC6C Gene

  • Protein details for TNRC6C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9HCJ0-TNR6C_HUMAN
    Recommended name:
    Trinucleotide repeat-containing gene 6C protein
    Protein Accession:
    Q9HCJ0
    Secondary Accessions:
    • G3XAB8
    • Q86UE5
    • Q8N3D8
    • Q96MU9

    Protein attributes for TNRC6C Gene

    Size:
    1690 amino acids
    Molecular mass:
    175964 Da
    Quaternary structure:
    • Interacts with one or more of the argonaute family proteins AGO1, AGO2, AGO3 and AGO4. Interacts with PABPC1 and EIF4G1. Interacts with CNOT1; the interaction is direct and mediates the association with the CCR4-NOT complex. Interacts with PAN3; the interaction mediates the association with the PAN complex.
    SequenceCaution:
    • Sequence=BAB13408.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAB71179.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for TNRC6C Gene

    Alternative splice isoforms for TNRC6C Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TNRC6C Gene

Proteomics data for TNRC6C Gene at MOPED

Post-translational modifications for TNRC6C Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TNRC6C Gene

No data available for DME Specific Peptides for TNRC6C Gene

Domains for TNRC6C Gene

Gene Families for TNRC6C Gene

HGNC:
  • TNRC :Trinucleotide (CAG) repeat containing

Suggested Antigen Peptide Sequences for TNRC6C Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9HCJ0

UniProtKB/Swiss-Prot:

TNR6C_HUMAN :
  • Q9HCJ0
Domain:
  • The silencing domain, also known as C-terminal effector domain (CED), can act in autonomous repression, including both translational inhibition and mRNA degradation
  • Contains 1 RRM (RNA recognition motif) domain.
  • Contains 1 UBA domain.
Family:
  • Belongs to the GW182 family.
genes like me logo Genes that share domains with TNRC6C: view

Function for TNRC6C Gene

Molecular function for TNRC6C Gene

UniProtKB/Swiss-Prot Function: Plays a role in RNA-mediated gene silencing by micro-RNAs (miRNAs). Required for miRNA-dependent translational repression 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 TNRC6C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 19383768
genes like me logo Genes that share ontologies with TNRC6C: view

Phenotypes for TNRC6C Gene

genes like me logo Genes that share phenotypes with TNRC6C: view

Animal Model Products

CRISPR Products

miRNA for TNRC6C Gene

miRTarBase miRNAs that target TNRC6C

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TNRC6C

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for TNRC6C Gene

Localization for TNRC6C Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TNRC6C Gene COMPARTMENTS Subcellular localization image for TNRC6C gene
Compartment Confidence
cytosol 4
nucleus 3

Gene Ontology (GO) - Cellular Components for TNRC6C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with TNRC6C: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TNRC6C Gene

Pathways for TNRC6C Gene

genes like me logo Genes that share pathways with TNRC6C: view

Gene Ontology (GO) - Biological Process for TNRC6C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001706 endoderm formation IEA --
GO:0007173 epidermal growth factor receptor signaling pathway TAS --
GO:0007219 Notch signaling pathway TAS --
GO:0007492 endoderm development --
GO:0008543 fibroblast growth factor receptor signaling pathway TAS --
genes like me logo Genes that share ontologies with TNRC6C: view

Transcripts for TNRC6C Gene

Unigene Clusters for TNRC6C Gene

Trinucleotide repeat containing 6C:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TNRC6C

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for TNRC6C
  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TNRC6C Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19a · 19b
SP1: - - - -
SP2: - - - -
SP3: -
SP4:

Relevant External Links for TNRC6C Gene

GeneLoc Exon Structure for
TNRC6C
ECgene alternative splicing isoforms for
TNRC6C

Expression for TNRC6C Gene

mRNA expression in normal human tissues for TNRC6C Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for TNRC6C Gene

SOURCE GeneReport for Unigene cluster for TNRC6C Gene Hs.569831

genes like me logo Genes that share expressions with TNRC6C: view

In Situ Assay 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 TNRC6C Gene

Orthologs for TNRC6C Gene

This gene was present in the common ancestor of animals.

Orthologs for TNRC6C Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TNRC6C 35
  • 99.52 (n)
  • 99.59 (a)
TNRC6C 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TNRC6C 35
  • 87.16 (n)
  • 88.38 (a)
TNRC6C 36
  • 79 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TNRC6C 35
  • 91.11 (n)
  • 92.04 (a)
TNRC6C 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tnrc6c 35
  • 90.11 (n)
  • 91.26 (a)
Tnrc6c 16
Tnrc6c 36
  • 81 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TNRC6C 36
  • 78 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TNRC6C 36
  • 60 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tnrc6c 35
  • 89.81 (n)
  • 90.96 (a)
chicken
(Gallus gallus)
Aves TNRC6C 35
  • 86.95 (n)
  • 89.39 (a)
TNRC6C 36
  • 89 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TNRC6C 36
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tnrc6c 35
  • 78.35 (n)
  • 77.42 (a)
zebrafish
(Danio rerio)
Actinopterygii Dr.12790 35
tnrc6b 36
  • 26 (a)
OneToMany
tnrc6c 35
  • 65.39 (n)
  • 63.29 (a)
TNRC6C (2 of 5) 36
  • 54 (a)
OneToMany
TNRC6C (3 of 5) 36
  • 33 (a)
OneToMany
TNRC6C (4 of 5) 36
  • 53 (a)
OneToMany
TNRC6C (5 of 5) 36
  • 53 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta gw 36
  • 24 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 32 (a)
OneToMany
Species with no ortholog for TNRC6C:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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 TNRC6C Gene

ENSEMBL:
Gene Tree for TNRC6C (if available)
TreeFam:
Gene Tree for TNRC6C (if available)

Paralogs for TNRC6C Gene

Paralogs for TNRC6C Gene

Selected SIMAP similar genes for TNRC6C Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with TNRC6C: view

Variants for TNRC6C Gene

Sequence variations from dbSNP and Humsavar for TNRC6C Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs15159 -- 78,105,066(+) CGTAG(C/T)TTTTT utr-variant-3-prime
rs1079120 -- 78,096,453(-) TGGGT(A/C)ATCTG intron-variant
rs1079121 -- 78,096,264(-) ctacc(A/C)tacag intron-variant
rs1137763 -- 78,004,242(-) ttttt(C/T)ttttt utr-variant-5-prime, synonymous-codon, reference
rs1137765 -- 78,004,237(-) ttttt(C/T)ttttt utr-variant-5-prime, missense, reference

Structural Variations from Database of Genomic Variants (DGV) for TNRC6C Gene

Variant ID Type Subtype PubMed ID
nsv833554 CNV Gain+Loss 17160897
dgv570e199 CNV Deletion 23128226
nsv908860 CNV Loss 21882294
dgv3275n71 CNV Loss 21882294
nsv2153 CNV Loss 18451855
dgv3276n71 CNV Loss 21882294
dgv3277n71 CNV Loss 21882294
dgv3278n71 CNV Loss 21882294

Relevant External Links for TNRC6C Gene

HapMap Linkage Disequilibrium report
TNRC6C
Human Gene Mutation Database (HGMD)
TNRC6C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TNRC6C Gene

Disorders for TNRC6C Gene

No disorders were found for TNRC6C Gene.

No data available for UniProtKB/Swiss-Prot for TNRC6C Gene

Publications for TNRC6C Gene

  1. Prediction of the coding sequences of unidentified human genes. XVIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10997877) Nagase T. … Ohara O. (DNA Res. 2000) 3 4
  2. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PMID: 12168954) Nakajima D. … Nagase T. (DNA Res. 2002) 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PMID: 16625196) Zody M.C. … Nusbaum C. (Nature 2006) 3 4

Products for TNRC6C Gene

Sources for TNRC6C Gene

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