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Aliases for EXOSC7 Gene

Aliases for EXOSC7 Gene

  • Exosome Component 7 2 3 4 5
  • Ribosomal RNA-Processing Protein 42 3 4
  • RRP42 3 4
  • P8 3 4
  • Exosome Complex Exonuclease RRP42 3
  • Exosome Complex Component RRP42 3
  • KIAA0116 4
  • HRrp42p 3
  • Rrp42p 3
  • EAP1 3

External Ids for EXOSC7 Gene

Previous GeneCards Identifiers for EXOSC7 Gene

  • GC03P044979
  • GC03P044992
  • GC03P045016
  • GC03P045025

Summaries for EXOSC7 Gene

GeneCards Summary for EXOSC7 Gene

EXOSC7 (Exosome Component 7) is a Protein Coding gene. Among its related pathways are CDK-mediated phosphorylation and removal of Cdc6 and Gene Expression. Gene Ontology (GO) annotations related to this gene include RNA binding and exoribonuclease activity. An important paralog of this gene is EXOSC9.

UniProtKB/Swiss-Prot for EXOSC7 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 EXOSC7 Gene

Additional gene information for EXOSC7 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EXOSC7 Gene

Genomics for EXOSC7 Gene

GeneHancer (GH) Regulatory Elements for EXOSC7 Gene

Promoters and enhancers for EXOSC7 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03I044974 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 566.4 +0.6 582 3.6 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF207 SP3 SP5 ZHX2 EXOSC7 ZDHHC3 ZNF445 RN7SL145P CLEC3B ZNF502 ZKSCAN7 ZNF852 RNU5B-3P KIAA1143
GH03I045024 Promoter/Enhancer 1.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 16.1 +51.1 51135 3.8 FOXA2 RFX1 KLF17 FEZF1 EGR1 GLIS1 VEZF1 CREB1 SPI1 CLEC3B EXOSC7 ZNF660 RNU5B-3P
GH03I044992 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 16.3 +19.5 19474 5.3 PKNOX1 FOXA2 FEZF1 GLI4 ZNF2 YY1 ZNF121 ZNF213 ZNF143 KLF7 EXOSC7 RNU5B-3P CLEC3B LIMD1 ENSG00000202268 ZNF502 ZNF35 ZNF660 ZDHHC3
GH03I045034 Enhancer 1 Ensembl ENCODE dbSUPER 25.8 +60.5 60549 2.5 HDGF EBF1 ELF1 GABPA ZFHX2 POLR2A EGR1 IKZF1 ZBTB33 MYC RNU5B-3P EXOSC7 CLEC3B CDCP1 LIMD1 LOC105377059
GH03I045037 Enhancer 1.4 Ensembl ENCODE dbSUPER 18.3 +62.7 62696 0.7 PKNOX1 ATF1 ARNT ARID4B ZNF2 IRF4 ZNF48 SLC30A9 CBX5 E2F8 EXOSC7 CLEC3B TMEM158 LARS2-AS1 CDCP1 LIMD1 ENSG00000202268 ZNF502 RNU5B-3P LOC105377059
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around EXOSC7 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the EXOSC7 gene promoter:

Genomic Locations for EXOSC7 Gene

Genomic Locations for EXOSC7 Gene
chr3:44,975,241-45,036,066
(GRCh38/hg38)
Size:
60,826 bases
Orientation:
Plus strand
chr3:45,016,733-45,077,558
(GRCh37/hg19)

Genomic View for EXOSC7 Gene

Genes around EXOSC7 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EXOSC7 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EXOSC7 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EXOSC7 Gene

Proteins for EXOSC7 Gene

  • Protein details for EXOSC7 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q15024-EXOS7_HUMAN
    Recommended name:
    Exosome complex component RRP42
    Protein Accession:
    Q15024
    Secondary Accessions:
    • Q96E72

    Protein attributes for EXOSC7 Gene

    Size:
    291 amino acids
    Molecular mass:
    31821 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. Interacts with EXOSC1. Interacts with ZC3HAV1.

    Three dimensional structures from OCA and Proteopedia for EXOSC7 Gene

neXtProt entry for EXOSC7 Gene

Post-translational modifications for EXOSC7 Gene

  • Ubiquitination at posLast=205205, posLast=244244, and Lys260
  • Modification sites at PhosphoSitePlus

Other Protein References for EXOSC7 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for EXOSC7 Gene

Domains & Families for EXOSC7 Gene

Gene Families for EXOSC7 Gene

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

Suggested Antigen Peptide Sequences for EXOSC7 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q15024

UniProtKB/Swiss-Prot:

EXOS7_HUMAN :
  • Belongs to the RNase PH family.
Family:
  • Belongs to the RNase PH family.
genes like me logo Genes that share domains with EXOSC7: view

Function for EXOSC7 Gene

Molecular function for EXOSC7 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 EXOSC7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000175 3-5-exoribonuclease activity TAS 11849973
GO:0003723 RNA binding TAS 11849973
GO:0004532 NOT exoribonuclease activity IDA 17174896
GO:0005515 protein binding IPI 11719186
GO:0017091 AU-rich element binding IBA --
genes like me logo Genes that share ontologies with EXOSC7: view

Phenotypes for EXOSC7 Gene

genes like me logo Genes that share phenotypes with EXOSC7: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for EXOSC7 Gene

Localization for EXOSC7 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EXOSC7 Gene

Nucleus, nucleolus. Cytoplasm. 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 EXOSC7 gene
Compartment Confidence
nucleus 5
cytosol 5
extracellular 2
cytoskeleton 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for EXOSC7 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) TAS 11849973
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with EXOSC7: view

Pathways & Interactions for EXOSC7 Gene

genes like me logo Genes that share pathways with EXOSC7: view

Pathways by source for EXOSC7 Gene

Gene Ontology (GO) - Biological Process for EXOSC7 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 11849973
GO:0006401 RNA catabolic process NAS 11719186
GO:0034427 nuclear-transcribed mRNA catabolic process, exonucleolytic, 3-5 IBA --
GO:0034473 U1 snRNA 3-end processing IBA --
genes like me logo Genes that share ontologies with EXOSC7: view

No data available for SIGNOR curated interactions for EXOSC7 Gene

Drugs & Compounds for EXOSC7 Gene

No Compound Related Data Available

Transcripts for EXOSC7 Gene

Unigene Clusters for EXOSC7 Gene

Exosome component 7:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for EXOSC7 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c ^ 8a · 8b ^ 9a · 9b · 9c
SP1: -
SP2: - - -
SP3: - - -
SP4: - - - - - -
SP5: - - -
SP6:

Relevant External Links for EXOSC7 Gene

GeneLoc Exon Structure for
EXOSC7
ECgene alternative splicing isoforms for
EXOSC7

Expression for EXOSC7 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for EXOSC7 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for EXOSC7 Gene

This gene is overexpressed in Lung (29.8), Peripheral blood mononuclear cells (11.0), and Urine (8.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for EXOSC7 Gene



Protein tissue co-expression partners for EXOSC7 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of EXOSC7 Gene:

EXOSC7

SOURCE GeneReport for Unigene cluster for EXOSC7 Gene:

Hs.719958

Evidence on tissue expression from TISSUES for EXOSC7 Gene

  • Nervous system(4.5)
  • Bone marrow(4.2)
genes like me logo Genes that share expression patterns with EXOSC7: 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 EXOSC7 Gene

Orthologs for EXOSC7 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for EXOSC7 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia EXOSC7 33 34
  • 98.85 (n)
dog
(Canis familiaris)
Mammalia EXOSC7 33 34
  • 92.1 (n)
oppossum
(Monodelphis domestica)
Mammalia EXOSC7 34
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Exosc7 33 16 34
  • 89.81 (n)
cow
(Bos Taurus)
Mammalia EXOSC7 33 34
  • 89.69 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia EXOSC7 34
  • 89 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Exosc7 33
  • 88.55 (n)
chicken
(Gallus gallus)
Aves EXOSC7 33 34
  • 78.24 (n)
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 85 (a)
OneToMany
-- 34
  • 76 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia exosc7 33
  • 71.95 (n)
zebrafish
(Danio rerio)
Actinopterygii exosc7 33 34
  • 69.87 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010483 33
  • 56.63 (n)
fruit fly
(Drosophila melanogaster)
Insecta Rrp42 33 34
  • 54.83 (n)
worm
(Caenorhabditis elegans)
Secernentea exos-7 34
  • 32 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RRP45 34
  • 19 (a)
OneToMany
RRP42 36
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G07750 33
  • 48.71 (n)
rice
(Oryza sativa)
Liliopsida Os12g0403800 33
  • 49.94 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 54 (a)
OneToOne
Species where no ortholog for EXOSC7 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • 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)
  • 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 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 EXOSC7 Gene

ENSEMBL:
Gene Tree for EXOSC7 (if available)
TreeFam:
Gene Tree for EXOSC7 (if available)

Paralogs for EXOSC7 Gene

Paralogs for EXOSC7 Gene

(1) SIMAP similar genes for EXOSC7 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with EXOSC7: view

Variants for EXOSC7 Gene

Sequence variations from dbSNP and Humsavar for EXOSC7 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000054948 -- 44,987,043(+) C/T intron_variant
rs1000081123 -- 44,994,215(+) TAAGAGTGGT/T intron_variant
rs1000117594 -- 45,008,204(+) C/T intron_variant
rs1000183681 -- 44,989,057(+) T/G intron_variant
rs1000226129 -- 44,974,522(+) C/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for EXOSC7 Gene

Variant ID Type Subtype PubMed ID
esv2675874 CNV deletion 23128226
esv3596042 CNV loss 21293372
nsv508914 CNV insertion 20534489
nsv834676 CNV gain+loss 17160897

Variation tolerance for EXOSC7 Gene

Residual Variation Intolerance Score: 37.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.55; 64.93% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for EXOSC7 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
EXOSC7

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EXOSC7 Gene

Disorders for EXOSC7 Gene

Additional Disease Information for EXOSC7

No disorders were found for EXOSC7 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for EXOSC7 Gene

Publications for EXOSC7 Gene

  1. Protein-protein interactions of hCsl4p with other human exosome subunits. (PMID: 11812149) Raijmakers R … Pruijn GJ (Journal of molecular biology 2002) 2 3 4 22 58
  2. AU binding proteins recruit the exosome to degrade ARE-containing mRNAs. (PMID: 11719186) Chen CY … Karin M (Cell 2001) 2 3 4 58
  3. Zinc-finger antiviral protein inhibits HIV-1 infection by selectively targeting multiply spliced viral mRNAs for degradation. (PMID: 21876179) Zhu Y … Gao G (Proceedings of the National Academy of Sciences of the United States of America 2011) 3 4 58
  4. Dis3-like 1: a novel exoribonuclease associated with the human exosome. (PMID: 20531389) Staals RH … Pruijn GJ (The EMBO journal 2010) 3 4 58
  5. Reconstitution, activities, and structure of the eukaryotic RNA exosome. (PMID: 17174896) Liu Q … Lima CD (Cell 2006) 3 4 58

Products for EXOSC7 Gene

Sources for EXOSC7 Gene

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