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Aliases for EXOSC2 Gene

Aliases for EXOSC2 Gene

  • Exosome Component 2 2 3 4 5
  • Homolog Of Yeast RRP4 (Ribosomal RNA Processing 4), 3 5 Exoribonuclease (RRP4) 2 3
  • Ribosomal RNA-Processing Protein 4 3 4
  • RRP4 3 4
  • Homolog Of Yeast RRP4 (Ribosomal RNA Processing 4), 3-5-Exoribonuclease 3
  • Exosome Complex Exonuclease RRP4 3
  • Exosome Complex Component RRP4 3
  • HRrp4p 3
  • Rrp4p 3
  • P7 3

External Ids for EXOSC2 Gene

Previous GeneCards Identifiers for EXOSC2 Gene

  • GC09P128846
  • GC09P130598
  • GC09P132558
  • GC09P133569
  • GC09P103055

Summaries for EXOSC2 Gene

GeneCards Summary for EXOSC2 Gene

EXOSC2 (Exosome Component 2) is a Protein Coding gene. Among its related pathways are CDK-mediated phosphorylation and removal of Cdc6 and Pyrimidine metabolism (KEGG). GO annotations related to this gene include RNA binding and exoribonuclease activity.

UniProtKB/Swiss-Prot for EXOSC2 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. EXOSC2 as peripheral part of the Exo-9 complex stabilizes the hexameric ring of RNase PH-domain subunits through contacts with EXOSC4 and EXOSC7.

Gene Wiki entry for EXOSC2 Gene

Additional gene information for EXOSC2 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EXOSC2 Gene

Genomics for EXOSC2 Gene

Regulatory Elements for EXOSC2 Gene

Enhancers for EXOSC2 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
GH09H129756 1.1 FANTOM5 Ensembl 52.7 -936.3 -936282 0 ZNF493 ZNF140 ZNF223 ZNF266 ZNF514 ZNF697 ZNF664 ZNF138 PRDM10 ZNF433 NUP188 EXOSC2 SPOUT1 FUBP3 LOC101929314 ABL1 TOR1B DOLK PTGES FNBP1
GH09H131372 2.1 FANTOM5 Ensembl ENCODE dbSUPER 22.8 +679.7 679680 2 HDGF PKNOX1 MLX ARNT ZFP64 ARID4B SIN3A ZNF2 YY1 SLC30A9 SETX NUP214 EXOSC2 LOC105376301 ENSG00000236986 POMT1 PRRC2B AIF1L GC09P131369
GH09H129860 1.5 Ensembl ENCODE dbSUPER 31.1 -829.5 -829527 7 HDGF PKNOX1 ATF1 ARNT TCF12 ZNF121 ZNF766 GATA2 ELK1 ATF7 EXOSC2 FUBP3 C9orf78 ABL1 NUP188 TOR1A TOR1B USP20 MIR6855
GH09H130444 2 FANTOM5 Ensembl ENCODE dbSUPER 23.1 -245.2 -245211 8 FOXA2 PKNOX1 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 NUP214 EXOSC2 ENSG00000246851 FUBP3 TOR1B ENSG00000236986 ASS1 GC09M130482
GH09H131640 1.7 FANTOM5 Ensembl ENCODE dbSUPER 17.9 +949.4 949435 6 CTCF ZBTB21 FEZF1 BATF ZNF48 ZIC2 GATA3 RBAK EED ZSCAN5C RAPGEF1 EXOSC2 POMT1 ENSG00000176868 PRRC2B FAM78A PIR57943 PIR59020
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around EXOSC2 on UCSC Golden Path with GeneCards custom track

Promoters for EXOSC2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000242230 79 2001 PKNOX1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF766 ZNF207

Genomic Location for EXOSC2 Gene

Chromosome:
9
Start:
130,693,721 bp from pter
End:
130,704,894 bp from pter
Size:
11,174 bases
Orientation:
Plus strand

Genomic View for EXOSC2 Gene

Genes around EXOSC2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EXOSC2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EXOSC2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EXOSC2 Gene

Proteins for EXOSC2 Gene

  • Protein details for EXOSC2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13868-EXOS2_HUMAN
    Recommended name:
    Exosome complex component RRP4
    Protein Accession:
    Q13868
    Secondary Accessions:
    • A3KFL3
    • A3KFL4
    • B4DKK6
    • Q9NUY4

    Protein attributes for EXOSC2 Gene

    Size:
    293 amino acids
    Molecular mass:
    32789 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 (PubMed:11719186, PubMed:20531389). 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 (PubMed:11719186, PubMed:20531389). Interacts with DIS3 (PubMed:20531389). Interacts with GTPBP1 (PubMed:21515746). Interacts with ZFP36L1 (via N-terminus) (PubMed:15687258).
    SequenceCaution:
    • Sequence=AAB60392.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for EXOSC2 Gene

    Alternative splice isoforms for EXOSC2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for EXOSC2 Gene

Post-translational modifications for EXOSC2 Gene

  • Ubiquitination at isoforms=2, 324
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for EXOSC2 Gene

Domains & Families for EXOSC2 Gene

Gene Families for EXOSC2 Gene

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

Graphical View of Domain Structure for InterPro Entry

Q13868

UniProtKB/Swiss-Prot:

EXOS2_HUMAN :
  • Belongs to the RRP4 family.
Family:
  • Belongs to the RRP4 family.
genes like me logo Genes that share domains with EXOSC2: view

Function for EXOSC2 Gene

Molecular function for EXOSC2 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. EXOSC2 as peripheral part of the Exo-9 complex stabilizes the hexameric ring of RNase PH-domain subunits through contacts with EXOSC4 and EXOSC7.

Phenotypes From GWAS Catalog for EXOSC2 Gene

Gene Ontology (GO) - Molecular Function for EXOSC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000175 3-5-exoribonuclease activity TAS 8600032
GO:0003723 RNA binding IEA --
GO:0004532 NOT exoribonuclease activity IDA 17174896
GO:0005515 protein binding IPI 11719186
GO:0008312 7S RNA binding TAS 8600032
genes like me logo Genes that share ontologies with EXOSC2: view
genes like me logo Genes that share phenotypes with EXOSC2: view

Animal Model Products

CRISPR Products

miRNA for EXOSC2 Gene

miRTarBase miRNAs that target EXOSC2

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for EXOSC2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for EXOSC2 Gene

Localization for EXOSC2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EXOSC2 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 EXOSC2 gene
Compartment Confidence
nucleus 5
cytosol 5
extracellular 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (3)
  • Nucleus (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for EXOSC2 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 TAS,IDA 17545563
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with EXOSC2: view

Pathways & Interactions for EXOSC2 Gene

genes like me logo Genes that share pathways with EXOSC2: view

Pathways by source for EXOSC2 Gene

Gene Ontology (GO) - Biological Process for EXOSC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000467 exonucleolytic trimming to generate mature 3-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA --
GO:0006364 rRNA processing TAS --
GO:0030307 positive regulation of cell growth IMP 17545563
GO:0034427 nuclear-transcribed mRNA catabolic process, exonucleolytic, 3-5 IBA --
GO:0034475 U4 snRNA 3-end processing IBA --
genes like me logo Genes that share ontologies with EXOSC2: view

No data available for SIGNOR curated interactions for EXOSC2 Gene

Drugs & Compounds for EXOSC2 Gene

No Compound Related Data Available

Transcripts for EXOSC2 Gene

Unigene Clusters for EXOSC2 Gene

Exosome component 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for EXOSC2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for EXOSC2 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b · 3c ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b · 9c
SP1: - - - - - - -
SP2: - - - - - - - - -
SP3: - - - - - - - - -
SP4: - - - - - - - - -
SP5: - - - -
SP6: - - - - - - - - - -
SP7: - - - - - - - - - - - - - -
SP8: -
SP9:
SP10:
SP11: -
SP12: - - - - - - -

Relevant External Links for EXOSC2 Gene

GeneLoc Exon Structure for
EXOSC2
ECgene alternative splicing isoforms for
EXOSC2

Expression for EXOSC2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for EXOSC2 Gene

Protein differential expression in normal tissues from HIPED for EXOSC2 Gene

This gene is overexpressed in Pancreas (7.7) and Lymph node (7.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for EXOSC2 Gene



Protein tissue co-expression partners for EXOSC2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of EXOSC2 Gene:

EXOSC2

SOURCE GeneReport for Unigene cluster for EXOSC2 Gene:

Hs.654643

Evidence on tissue expression from TISSUES for EXOSC2 Gene

  • Lung(4.4)
  • Intestine(4.2)
  • Nervous system(3.3)
genes like me logo Genes that share expression patterns with EXOSC2: view

Primer Products

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 EXOSC2 Gene

Orthologs for EXOSC2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for EXOSC2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia EXOSC2 34 33
  • 99.77 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia EXOSC2 34
  • 93 (a)
OneToOne
cow
(Bos Taurus)
Mammalia EXOSC2 33 34
  • 91.7 (n)
dog
(Canis familiaris)
Mammalia EXOSC2 33 34
  • 90.07 (n)
mouse
(Mus musculus)
Mammalia Exosc2 33 16 34
  • 87.37 (n)
rat
(Rattus norvegicus)
Mammalia Exosc2 33
  • 86.23 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia EXOSC2 34
  • 85 (a)
OneToOne
chicken
(Gallus gallus)
Aves EXOSC2 33 34
  • 76.37 (n)
lizard
(Anolis carolinensis)
Reptilia EXOSC2 34
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia exosc2 33
  • 70.19 (n)
Str.5017 33
zebrafish
(Danio rerio)
Actinopterygii exosc2 33 34
  • 71.22 (n)
wufa97b01 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.183 33
fruit fly
(Drosophila melanogaster)
Insecta Rrp4 33 34
  • 62.99 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011211 33
  • 61.64 (n)
worm
(Caenorhabditis elegans)
Secernentea exos-2 33 34
  • 49.75 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E12739g 33
  • 52.16 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AAL034C 33
  • 51.24 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RRP4 34 36 33
  • 51.03 (n)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons RRP4 33
  • 56.26 (n)
rice
(Oryza sativa)
Liliopsida Os04g0520000 33
  • 52.1 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 63 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC2F7.14c 33
  • 53.63 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU04009 33
  • 49.93 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.8392 33
Species where no ortholog for EXOSC2 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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 EXOSC2 Gene

ENSEMBL:
Gene Tree for EXOSC2 (if available)
TreeFam:
Gene Tree for EXOSC2 (if available)

Paralogs for EXOSC2 Gene

No data available for Paralogs for EXOSC2 Gene

Variants for EXOSC2 Gene

Sequence variations from dbSNP and Humsavar for EXOSC2 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs1000064620 -- 130,701,488(+) TCTTA(G/T)CTTTA intron-variant, nc-transcript-variant
rs1000082707 -- 130,697,855(+) GTGGC(A/G)TGATC intron-variant, utr-variant-5-prime
rs1000158856 -- 130,691,850(+) ATTAG(C/G)CGAGC upstream-variant-2KB
rs1000645967 -- 130,695,164(+) CAGAA(C/T)GTTAG intron-variant
rs1001414509 -- 130,703,285(+) TCCGT(C/G)AGTAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for EXOSC2 Gene

Variant ID Type Subtype PubMed ID
esv3621866 CNV gain 21293372
nsv825122 CNV gain 20364138
nsv831735 CNV loss 17160897

Variation tolerance for EXOSC2 Gene

Residual Variation Intolerance Score: 29% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.91; 35.55% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for EXOSC2 Gene

Human Gene Mutation Database (HGMD)
EXOSC2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
EXOSC2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EXOSC2 Gene

Disorders for EXOSC2 Gene

Relevant External Links for EXOSC2

Genetic Association Database (GAD)
EXOSC2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
EXOSC2

No disorders were found for EXOSC2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for EXOSC2 Gene

Publications for EXOSC2 Gene

  1. The exosome: a conserved eukaryotic RNA processing complex containing multiple 3'-->5' exoribonucleases. (PMID: 9390555) Mitchell P … Tollervey D (Cell 1997) 3 4 22 60
  2. The 3' end of yeast 5.8S rRNA is generated by an exonuclease processing mechanism. (PMID: 8600032) Mitchell P … Tollervey D (Genes & development 1996) 2 3 4 60
  3. Dis3-like 1: a novel exoribonuclease associated with the human exosome. (PMID: 20531389) Staals RH … Pruijn GJ (The EMBO journal 2010) 3 4 60
  4. Human cell growth requires a functional cytoplasmic exosome, which is involved in various mRNA decay pathways. (PMID: 17545563) van Dijk EL … Pruijn GJ (RNA (New York, N.Y.) 2007) 3 4 60
  5. Reconstitution, activities, and structure of the eukaryotic RNA exosome. (PMID: 17174896) Liu Q … Lima CD (Cell 2006) 3 4 60

Products for EXOSC2 Gene

Sources for EXOSC2 Gene

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