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Exosc5 exosome component 5 [ Rattus norvegicus (Norway rat) ]

Gene ID: 308441, updated on 5-Aug-2018

Summary

Official Symbol
Exosc5provided by RGD
Official Full Name
exosome component 5provided by RGD
Primary source
RGD:1307861
See related
Ensembl:ENSRNOG00000020635
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Expression
Biased expression in Testes (RPKM 302.2), Kidney (RPKM 151.4) and 9 other tissues See more
Orthologs

Genomic context

See Exosc5 in Genome Data Viewer
Location:
1q21
Exon count:
7
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (82452104..82461607)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (83713699..83723115)

Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 8 Neighboring gene branched chain ketoacid dehydrogenase E1, alpha polypeptide Neighboring gene transmembrane protein 91 Neighboring gene B9 domain containing 2

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
NOT exoribonuclease activity ISO
Inferred from Sequence Orthology
more info
 
molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
DNA deamination IEA
Inferred from Electronic Annotation
more info
 
DNA deamination ISO
Inferred from Sequence Orthology
more info
 
RNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
U4 snRNA 3'-end processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
biological_process ND
No biological Data available
more info
 
defense response to virus IEA
Inferred from Electronic Annotation
more info
 
defense response to virus ISO
Inferred from Sequence Orthology
more info
 
exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay IEA
Inferred from Electronic Annotation
more info
 
exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay ISO
Inferred from Sequence Orthology
more info
 
nuclear mRNA surveillance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
polyadenylation-dependent snoRNA 3'-end processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
rRNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
cytoplasmic exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
 
nuclear exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus ISO
Inferred from Sequence Orthology
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 
transcriptionally active chromatin IEA
Inferred from Electronic Annotation
more info
 
transcriptionally active chromatin ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
exosome complex component RRP46
Names
exosome complex exonuclease RRP46

NCBI Reference Sequences (RefSeq)

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_001107493.2NP_001100963.2  exosome complex component RRP46

    See identical proteins and their annotated locations for NP_001100963.2

    Status: VALIDATED

    Source sequence(s)
    BC167023, H31667
    UniProtKB/TrEMBL
    B2RZ47, F1LSX7
    Related
    ENSRNOP00000028026.3, ENSRNOT00000028026.5
    Conserved Domains (2) summary
    TIGR02065
    Location:10232
    ECX1; archaeal exosome-like complex exonuclease 1
    cd11372
    Location:28225
    RNase_PH_RRP46; RRP46 subunit of eukaryotic exosome

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005100.4 Reference Rnor_6.0 Primary Assembly

    Range
    82452104..82461607
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006228437.3XP_006228499.1  exosome complex component RRP46 isoform X1

    See identical proteins and their annotated locations for XP_006228499.1

    UniProtKB/TrEMBL
    F1LSX7
    Conserved Domains (2) summary
    TIGR02065
    Location:10232
    ECX1; archaeal exosome-like complex exonuclease 1
    cd11372
    Location:28225
    RNase_PH_RRP46; RRP46 subunit of eukaryotic exosome

Alternate Rn_Celera

Genomic

  1. AC_000069.1 Alternate Rn_Celera

    Range
    75612126..75617002
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. NW_001089910.1 Alternate Rn_Celera

    Range
    553..785 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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