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Aliases for EXOSC6 Gene

Aliases for EXOSC6 Gene

  • Exosome Component 6 2 3 4
  • MTR3 3 4 6
  • MRNA Transport Regulator 3 Homolog 3 4
  • HMtr3 3 4
  • P11 3 4
  • Mtr3 (MRNA Transport Regulator 3)-Homolog (Yeast) 2
  • Homolog Of Yeast MRNA Transport Regulator 3 3
  • Mtr3 (MRNA Transport Regulator 3)-Homolog 3
  • Exosome Complex Exonuclease MTR3 3
  • Exosome Complex Component MTR3 3
  • HMtr3p 3
  • Mtr3p 3
  • EAP4 3

External Ids for EXOSC6 Gene

Previous GeneCards Identifiers for EXOSC6 Gene

  • GC16M070061
  • GC16M068841
  • GC16M070284
  • GC16M056117

Summaries for EXOSC6 Gene

Entrez Gene Summary for EXOSC6 Gene

  • This gene product constitutes one of the subunits of the multisubunit particle called exosome, which mediates mRNA degradation. The composition of human exosome is similar to its yeast counterpart. This protein is homologous to the yeast Mtr3 protein. Its exact function is not known, however, it has been shown using a cell-free RNA decay system that the exosome is required for rapid degradation of unstable mRNAs containing AU-rich elements (AREs), but not for poly(A) shortening. The exosome does not recognize ARE-containing mRNAs on its own, but requires ARE-binding proteins that could interact with the exosome and recruit it to unstable mRNAs, thereby promoting their rapid degradation. [provided by RefSeq, Jul 2008]

GeneCards Summary for EXOSC6 Gene

EXOSC6 (Exosome Component 6) is a Protein Coding gene. Among its related pathways are Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein and Unfolded Protein Response. GO annotations related to this gene include RNA binding and exoribonuclease activity. An important paralog of this gene is EXOSC4.

UniProtKB/Swiss-Prot for EXOSC6 Gene

  • Non-catalytic component of the RNA exosome complex which has 3->5 exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. In the nucleus, the RNA exosome complex is involved in proper maturation of stable RNA species such as rRNA, snRNA and snoRNA, in the elimination of RNA processing by-products and non-coding pervasive transcripts, such as antisense RNA species and promoter-upstream transcripts (PROMPTs), and of mRNAs with processing defects, thereby limiting or excluding their export to the cytoplasm. The RNA exosome may be involved in Ig class switch recombination (CSR) and/or Ig variable region somatic hypermutation (SHM) by targeting AICDA deamination activity to transcribed dsDNA substrates. In the cytoplasm, the RNA exosome complex is involved in general mRNA turnover and specifically degrades inherently unstable mRNAs containing AU-rich elements (AREs) within their 3 untranslated regions, and in RNA surveillance pathways, preventing translation of aberrant mRNAs. It seems to be involved in degradation of histone mRNA. The catalytic inactive RNA exosome core complex of 9 subunits (Exo-9) is proposed to play a pivotal role in the binding and presentation of RNA for ribonucleolysis, and to serve as a scaffold for the association with catalytic subunits and accessory proteins or complexes.

Gene Wiki entry for EXOSC6 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EXOSC6 Gene

Genomics for EXOSC6 Gene

Regulatory Elements for EXOSC6 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for EXOSC6 Gene

Start:
70,246,778 bp from pter
End:
70,251,930 bp from pter
Size:
5,153 bases
Orientation:
Minus strand

Genomic View for EXOSC6 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for EXOSC6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EXOSC6 Gene

Proteins for EXOSC6 Gene

  • Protein details for EXOSC6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5RKV6-EXOS6_HUMAN
    Recommended name:
    Exosome complex component MTR3
    Protein Accession:
    Q5RKV6
    Secondary Accessions:

    Protein attributes for EXOSC6 Gene

    Size:
    272 amino acids
    Molecular mass:
    28235 Da
    Quaternary structure:
    • Component of the RNA exosome complex. Specifically part of the catalytically inactive RNA exosome core (Exo-9) complex which is believed to associate with catalytic subunits EXOSC10, and DIS3 or DIS3L in cytoplasmic- and nuclear-specific RNA exosome complex forms. Exo-9 is formed by a hexameric ring of RNase PH domain-containing subunits specifically containing the heterodimers EXOSC4-EXOSC9, EXOSC5-EXOSC8 and EXOSC6-EXOSC7, and peripheral S1 domain-containing components EXOSC1, EXOSC2 and EXOSC3 located on the top of the ring structure.

    Three dimensional structures from OCA and Proteopedia for EXOSC6 Gene

neXtProt entry for EXOSC6 Gene

Proteomics data for EXOSC6 Gene at MOPED

Post-translational modifications for EXOSC6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for EXOSC6 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for EXOSC6 Gene

Domains for EXOSC6 Gene

Protein Domains for EXOSC6 Gene

Suggested Antigen Peptide Sequences for EXOSC6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q5RKV6

UniProtKB/Swiss-Prot:

EXOS6_HUMAN :
  • Q5RKV6
Family:
  • Belongs to the RNase PH family.
genes like me logo Genes that share domains with EXOSC6: view

No data available for Gene Families for EXOSC6 Gene

Function for EXOSC6 Gene

Molecular function for EXOSC6 Gene

UniProtKB/Swiss-Prot Function: Non-catalytic component of the RNA exosome complex which has 3->5 exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. In the nucleus, the RNA exosome complex is involved in proper maturation of stable RNA species such as rRNA, snRNA and snoRNA, in the elimination of RNA processing by-products and non-coding pervasive transcripts, such as antisense RNA species and promoter-upstream transcripts (PROMPTs), and of mRNAs with processing defects, thereby limiting or excluding their export to the cytoplasm. The RNA exosome may be involved in Ig class switch recombination (CSR) and/or Ig variable region somatic hypermutation (SHM) by targeting AICDA deamination activity to transcribed dsDNA substrates. In the cytoplasm, the RNA exosome complex is involved in general mRNA turnover and specifically degrades inherently unstable mRNAs containing AU-rich elements (AREs) within their 3 untranslated regions, and in RNA surveillance pathways, preventing translation of aberrant mRNAs. It seems to be involved in degradation of histone mRNA. The catalytic inactive RNA exosome core complex of 9 subunits (Exo-9) is proposed to play a pivotal role in the binding and presentation of RNA for ribonucleolysis, and to serve as a scaffold for the association with catalytic subunits and accessory proteins or complexes.

Gene Ontology (GO) - Molecular Function for EXOSC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004532 NOT exoribonuclease activity IDA 17174896
GO:0044822 poly(A) RNA binding IDA 22681889
genes like me logo Genes that share ontologies with EXOSC6: view

Phenotypes for EXOSC6 Gene

genes like me logo Genes that share phenotypes with EXOSC6: view

Animal Model Products

CRISPR Products

miRNA for EXOSC6 Gene

miRTarBase miRNAs that target EXOSC6

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for EXOSC6

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for EXOSC6 Gene

Localization for EXOSC6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EXOSC6 Gene

Cytoplasm. Nucleus, nucleolus. Nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for EXOSC6 Gene COMPARTMENTS Subcellular localization image for EXOSC6 gene
Compartment Confidence
cytosol 4
nucleus 4
mitochondrion 1
peroxisome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for EXOSC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000176 nuclear exosome (RNase complex) IBA --
GO:0000177 cytoplasmic exosome (RNase complex) IBA --
GO:0000178 exosome (RNase complex) IDA 20531389
GO:0005634 nucleus --
GO:0005730 nucleolus IBA --
genes like me logo Genes that share ontologies with EXOSC6: view

Pathways for EXOSC6 Gene

genes like me logo Genes that share pathways with EXOSC6: view

Pathways by source for EXOSC6 Gene

Gene Ontology (GO) - Biological Process for EXOSC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay TAS --
GO:0006364 rRNA processing --
GO:0010467 gene expression TAS --
GO:0016070 RNA metabolic process --
GO:0016071 mRNA metabolic process --
genes like me logo Genes that share ontologies with EXOSC6: view

Transcripts for EXOSC6 Gene

mRNA/cDNA for EXOSC6 Gene

(96) Selected AceView cDNA sequences:
(3) Additional mRNA sequences :
(1) REFSEQ mRNAs :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for EXOSC6 Gene

Exosome component 6:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for EXOSC6

Primer Products

  • 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 EXOSC6 Gene

No ASD Table

Relevant External Links for EXOSC6 Gene

GeneLoc Exon Structure for
EXOSC6
ECgene alternative splicing isoforms for
EXOSC6

Expression for EXOSC6 Gene

mRNA expression in normal human tissues for EXOSC6 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for EXOSC6 Gene

SOURCE GeneReport for Unigene cluster for EXOSC6 Gene Hs.660633

genes like me logo Genes that share expressions with EXOSC6: 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 EXOSC6 Gene

Orthologs for EXOSC6 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for EXOSC6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia EXOSC6 35
  • 99.51 (n)
  • 99.63 (a)
EXOSC6 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia EXOSC6 35
  • 92.31 (n)
  • 95.77 (a)
mouse
(Mus musculus)
Mammalia Exosc6 35
  • 86.67 (n)
  • 91.92 (a)
Exosc6 16
oppossum
(Monodelphis domestica)
Mammalia EXOSC6 36
  • 81 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Exosc6 35
  • 84.74 (n)
  • 92.31 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.6653 35
tropical clawed frog
(Silurana tropicalis)
Amphibia rarg 35
  • 60.78 (n)
  • 61.18 (a)
Str.64 35
zebrafish
(Danio rerio)
Actinopterygii exosc6 35
  • 58.37 (n)
  • 50.61 (a)
exosc6 36
  • 45 (a)
OneToOne
idibd1130 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011906 35
  • 49.59 (n)
  • 40.98 (a)
fruit fly
(Drosophila melanogaster)
Insecta Mtr3 36
  • 20 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea exos-4.2 36
  • 22 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SKI6 36
  • 23 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G27490 35
  • 40.76 (n)
  • 33.18 (a)
rice
(Oryza sativa)
Liliopsida Os08g0116800 35
  • 45.56 (n)
  • 37.69 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU08026 35
  • 41.19 (n)
  • 33.65 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPBC211.08c 35
  • 34.69 (n)
  • 31.47 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 35 (a)
OneToOne
Species with no ortholog for EXOSC6:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for EXOSC6 Gene

ENSEMBL:
Gene Tree for EXOSC6 (if available)
TreeFam:
Gene Tree for EXOSC6 (if available)

Paralogs for EXOSC6 Gene

Paralogs for EXOSC6 Gene

Pseudogenes.org Pseudogenes for EXOSC6 Gene

genes like me logo Genes that share paralogs with EXOSC6: view

Variants for EXOSC6 Gene

Sequence variations from dbSNP and Humsavar for EXOSC6 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type MAF
rs626992 -- 70,251,714(+) ACACA(A/C/G)CACCT reference, missense, synonymous-codon
rs626993 -- 70,251,715(+) CACAG(C/G)ACCTT synonymous-codon, reference
rs147573939 -- 70,251,884(+) GCGGC(-/GGG)GGTGA cds-indel
rs201044031 -- 70,251,812(+) CGCGG(A/G)TGCCG reference, missense
rs368250236 -- 70,251,853(+) TGCGG(C/G)GGCTG synonymous-codon, reference

Structural Variations from Database of Genomic Variants (DGV) for EXOSC6 Gene

Variant ID Type Subtype PubMed ID
dgv895e1 CNV Complex 17122850
nsv428328 CNV Gain+Loss 18775914
esv33745 CNV Gain+Loss 17666407
dgv896e1 CNV Complex 17122850
esv25519 CNV Gain+Loss 19812545
nsv7285 OTHER Inversion 18451855
nsv833271 CNV Gain+Loss 17160897
nsv906868 CNV Loss 21882294

Relevant External Links for EXOSC6 Gene

HapMap Linkage Disequilibrium report
EXOSC6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EXOSC6 Gene

Disorders for EXOSC6 Gene

No disorders were found for EXOSC6 Gene.

No data available for UniProtKB/Swiss-Prot for EXOSC6 Gene

Publications for EXOSC6 Gene

  1. Protein-protein interactions between human exosome components support the assembly of RNase PH-type subunits into a six-membered PNPase-like ring. (PMID: 12419256) Raijmakers R. … Pruijn G.J.M. (J. Mol. Biol. 2002) 2 3 4
  2. AU binding proteins recruit the exosome to degrade ARE-containing mRNAs. (PMID: 11719186) Chen C.-Y. … Karin M. (Cell 2001) 2 3 4
  3. Dis3-like 1: a novel exoribonuclease associated with the human exosome. (PMID: 20531389) Staals R.H. … Pruijn G.J. (EMBO J. 2010) 3 4
  4. A protein interaction framework for human mRNA degradation. (PMID: 15231747) Lehner B. … Sanderson C.M. (Genome Res. 2004) 3 4
  5. Reconstitution, activities, and structure of the eukaryotic RNA exosome. (PMID: 17174896) Liu Q. … Lima C.D. (Cell 2006) 3 4

Products for EXOSC6 Gene

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate EXOSC6
    • 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
    • Predesigned siRNA for gene silencing in human,mouse,rat for EXOSC6
    • Block miRNA regulation of EXOSC6 using miScript Target Protectors

    Sources for EXOSC6 Gene

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