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EXOSC5 exosome component 5 [ Homo sapiens (human) ]

Gene ID: 56915, updated on 5-Sep-2021

Summary

Official Symbol
EXOSC5provided by HGNC
Official Full Name
exosome component 5provided by HGNC
Primary source
HGNC:HGNC:24662
See related
Ensembl:ENSG00000077348 MIM:606492
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
p12B; RRP46; RRP41B; Rrp46p; hRrp46p
Expression
Ubiquitous expression in lymph node (RPKM 8.8), ovary (RPKM 8.2) and 25 other tissues See more
Orthologs
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Genomic context

See EXOSC5 in Genome Data Viewer
Location:
19q13.2
Exon count:
6
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (41386374..41397359, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (41892279..41903264, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene transforming growth factor beta 1 Neighboring gene B9 domain containing 2 Neighboring gene transmembrane protein 91 Neighboring gene branched chain keto acid dehydrogenase E1 subunit alpha Neighboring gene UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 8

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of exosome component 5 (EXOSC5) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed
Knockdown of exosome component 5 (EXOSC5) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag Knockdown of exosome component 5 (EXOSC5) affects HIV-1 Gag trafficking, leading to inhibit HIV-1 replication in Jurkat cells PubMed
Rev rev HIV-1 Rev interacting protein, exosome component 5 (EXOSC5), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with EXOSC5 is increased by RRE PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC12901, MGC111224

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 3'-5'-exoribonuclease activity NAS
Non-traceable Author Statement
more info
PubMed 
enables RNA binding IEA
Inferred from Electronic Annotation
more info
 
NOT enables exoribonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in DNA deamination IDA
Inferred from Direct Assay
more info
PubMed 
involved_in RNA phosphodiester bond hydrolysis, exonucleolytic IEA
Inferred from Electronic Annotation
more info
 
involved_in U4 snRNA 3'-end processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within defense response to virus IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in exonucleolytic catabolism of deadenylated mRNA IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in nuclear mRNA surveillance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in polyadenylation-dependent snoRNA 3'-end processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in rRNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in rRNA processing NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
located_in cytoplasm NAS
Non-traceable Author Statement
more info
PubMed 
part_of cytoplasmic exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
 
part_of exosome (RNase complex) IDA
Inferred from Direct Assay
more info
PubMed 
part_of nuclear exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleolus IDA
Inferred from Direct Assay
more info
 
located_in nucleolus NAS
Non-traceable Author Statement
more info
PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in transcriptionally active chromatin IMP
Inferred from Mutant Phenotype
more info
PubMed 

General protein information

Preferred Names
exosome complex component RRP46
Names
chronic myelogenous leukemia tumor antigen 28
exosome complex exonuclease RRP46
exosome component Rrp46
ribosomal RNA-processing protein 46

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_020158.4NP_064543.3  exosome complex component RRP46

    See identical proteins and their annotated locations for NP_064543.3

    Status: VALIDATED

    Source sequence(s)
    AC011462, AF281134
    Consensus CDS
    CCDS12580.1
    UniProtKB/Swiss-Prot
    Q9NQT4
    Related
    ENSP00000221233.3, ENST00000221233.9
    Conserved Domains (2) summary
    TIGR02065
    Location:28232
    ECX1; archaeal exosome-like complex exonuclease 1
    cd11372
    Location:28225
    RNase_PH_RRP46; RRP46 subunit of eukaryotic exosome

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    41386374..41397359 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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