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 ... See more...

Aliases for EXOSC6 Gene

Aliases for EXOSC6 Gene

  • Exosome Component 6 2 3 4 5
  • MTR3 2 3 4
  • P11 2 3 4
  • MRNA Transport Regulator 3 Homolog 3 4
  • Exosome Complex Component MTR3 3 4
  • HMtr3p 2 3
  • Mtr3p 2 3
  • HMtr3 3 4
  • EAP4 2 3
  • 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
  • EXOSC6 5

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. Diseases associated with EXOSC6 include Plantar Wart. Among its related pathways are rRNA processing in the nucleus and cytosol and Regulation of activated PAK-2p34 by proteasome mediated degradation. Gene Ontology (GO) annotations related to this gene include exoribonuclease activity. An important paralog of this gene is EXOSC5.

UniProtKB/Swiss-Prot Summary 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

Additional gene information for EXOSC6 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for EXOSC6 Gene

Genomics for EXOSC6 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for EXOSC6 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around EXOSC6 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for EXOSC6

Top Transcription factor binding sites by QIAGEN in the EXOSC6 gene promoter:
  • AREB6
  • C/EBPalpha
  • CHOP-10
  • COMP1
  • GATA-2
  • IRF-2
  • SRF
  • SRF (504 AA)

Genomic Locations for EXOSC6 Gene

Genomic Locations for EXOSC6 Gene
chr16:70,246,778-70,251,940
(GRCh38/hg38)
Size:
5,163 bases
Orientation:
Minus strand
chr16:70,284,134-70,285,833
(GRCh37/hg19)
Size:
1,700 bases
Orientation:
Minus strand

Genomic View for EXOSC6 Gene

Genes around EXOSC6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EXOSC6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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

    Protein attributes for EXOSC6 Gene

    Size:
    272 amino acids
    Molecular mass:
    28235 Da
    Quaternary structure:
    • Component of the RNA exosome complex (PubMed:29906447). 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

Post-translational modifications for EXOSC6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for EXOSC6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for EXOSC6 Gene

Domains & Families for EXOSC6 Gene

Gene Families for EXOSC6 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for EXOSC6 Gene

Suggested Antigen Peptide Sequences for EXOSC6 Gene

GenScript: Design optimal peptide antigens:
  • p11 (EXOS6_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q5RKV6

UniProtKB/Swiss-Prot:

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

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.

Phenotypes From GWAS Catalog for EXOSC6 Gene

Gene Ontology (GO) - Molecular Function for EXOSC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA,HDA 22681889
GO:0004532 NOT exoribonuclease activity IDA 17174896
genes like me logo Genes that share ontologies with EXOSC6: view
genes like me logo Genes that share phenotypes with EXOSC6: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for EXOSC6

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets 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
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 EXOSC6 gene
Compartment Confidence
nucleus 4
cytosol 4
extracellular 2
cytoskeleton 1
mitochondrion 1
peroxisome 1
plasma membrane 0

Gene Ontology (GO) - Cellular Components for EXOSC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000176 nuclear exosome (RNase complex) IBA 21873635
GO:0000177 cytoplasmic exosome (RNase complex) IBA 21873635
GO:0000178 exosome (RNase complex) IEA,IDA 20531389
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with EXOSC6: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for EXOSC6 Gene

Pathways & Interactions for EXOSC6 Gene

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

Pathways by source for EXOSC6 Gene

1 GeneGo (Thomson Reuters) pathway for EXOSC6 Gene
  • ATP/ITP metabolism

Gene Ontology (GO) - Biological Process for EXOSC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006364 rRNA processing TAS --
GO:0016075 rRNA catabolic process IBA 21873635
GO:0034427 nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' IBA 21873635
GO:0034475 U4 snRNA 3'-end processing IBA 21873635
GO:0043488 regulation of mRNA stability TAS --
genes like me logo Genes that share ontologies with EXOSC6: view

No data available for SIGNOR curated interactions for EXOSC6 Gene

Drugs & Compounds for EXOSC6 Gene

No Compound Related Data Available

Transcripts for EXOSC6 Gene

mRNA/cDNA for EXOSC6 Gene

1 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for EXOSC6

Alternative Splicing Database (ASD) splice patterns (SP) for EXOSC6 Gene

No ASD Table

Relevant External Links for EXOSC6 Gene

GeneLoc Exon Structure for
EXOSC6

Expression for EXOSC6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for EXOSC6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for EXOSC6 Gene

This gene is overexpressed in Breast (32.6) and Peripheral blood mononuclear cells (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for EXOSC6 Gene



Protein tissue co-expression partners for EXOSC6 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for EXOSC6

SOURCE GeneReport for Unigene cluster for EXOSC6 Gene:

Hs.660633

Evidence on tissue expression from TISSUES for EXOSC6 Gene

  • Nervous system(2.3)
genes like me logo Genes that share expression patterns with EXOSC6: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 30 31
  • 99.51 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia EXOSC6 30
  • 92.31 (n)
Mouse
(Mus musculus)
Mammalia Exosc6 30 17
  • 86.67 (n)
Rat
(Rattus norvegicus)
Mammalia Exosc6 30
  • 84.74 (n)
Oppossum
(Monodelphis domestica)
Mammalia EXOSC6 31
  • 81 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia rarg 30
  • 60.78 (n)
Str.64 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.6653 30
Zebrafish
(Danio rerio)
Actinopterygii exosc6 30 31
  • 58.37 (n)
OneToOne
idibd1130 30
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011906 30
  • 49.59 (n)
Fruit Fly
(Drosophila melanogaster)
Insecta Mtr3 31
  • 20 (a)
OneToOne
Worm
(Caenorhabditis elegans)
Secernentea exos-4.2 31
  • 22 (a)
OneToOne
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SKI6 31
  • 23 (a)
OneToMany
Thale Cress
(Arabidopsis thaliana)
eudicotyledons AT4G27490 30
  • 40.76 (n)
Rice
(Oryza sativa)
Liliopsida Os08g0116800 30
  • 45.56 (n)
Bread mold
(Neurospora crassa)
Ascomycetes NCU08026 30
  • 41.19 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 35 (a)
OneToOne
Fission Yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPBC211.08c 30
  • 34.69 (n)
Species where no ortholog for EXOSC6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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 Vase (Ciona intestinalis)
  • 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)
Aminode:
Evolutionary constrained regions (ECRs) for EXOSC6: view image

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

Additional dbSNP identifiers (rs#s) for EXOSC6 Gene

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

Variant ID Type Subtype PubMed ID
esv25519 CNV gain+loss 19812545
esv2758652 CNV gain+loss 17122850
esv33745 CNV gain+loss 17666407
nsv1061286 CNV gain 25217958
nsv428328 CNV gain+loss 18775914
nsv7285 OTHER inversion 18451855
nsv833271 CNV gain+loss 17160897
nsv978165 CNV duplication 23825009

Variation tolerance for EXOSC6 Gene

Gene Damage Index Score: 4.33; 63.12% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for EXOSC6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
EXOSC6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for EXOSC6 Gene

Disorders for EXOSC6 Gene

MalaCards: The human disease database

(1) MalaCards diseases for EXOSC6 Gene - From: DISEASES

Disorder Aliases PubMed IDs
plantar wart
  • verruca plantaris
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with EXOSC6: view

No data available for UniProtKB/Swiss-Prot and Genatlas 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 GJ (Journal of molecular biology 2002) 2 3 4
  2. AU binding proteins recruit the exosome to degrade ARE-containing mRNAs. (PMID: 11719186) Chen CY … Karin M (Cell 2001) 2 3 4
  3. The RNA exosome targets the AID cytidine deaminase to both strands of transcribed duplex DNA substrates. (PMID: 21255825) Basu U … Alt FW (Cell 2011) 3 4
  4. Dis3-like 1: a novel exoribonuclease associated with the human exosome. (PMID: 20531389) Staals RH … Pruijn GJ (The EMBO journal 2010) 3 4
  5. Reconstitution, activities, and structure of the eukaryotic RNA exosome. (PMID: 17174896) Liu Q … Lima CD (Cell 2006) 3 4

Products for EXOSC6 Gene

Sources for EXOSC6 Gene