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    Med20 mediator complex subunit 20 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316209, updated on 9-Dec-2024

    Summary

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    Symbol
    Med20provided by RGD
    Full Name
    mediator complex subunit 20provided by RGD
    Primary source
    RGD:1306415
    See related
    EnsemblRapid:ENSRNOG00000013852 AllianceGenome:RGD:1306415
    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
    Also known as
    Trfp; Usp49
    Summary
    Contributes to ubiquitin protein ligase activity. Involved in protein ubiquitination. Part of ubiquitin ligase complex. Orthologous to human MED20 (mediator complex subunit 20). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 145.5), Heart (RPKM 131.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Med20 in Genome Data Viewer
    Location:
    9q12
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (20867681..20880288, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (13370146..13382756, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (15379379..15393131, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene translocase of outer mitochondrial membrane 6 Neighboring gene ubiquitin specific peptidase 49 Neighboring gene cAMP-dependent protein kinase inhibitor gamma-like Neighboring gene bystin-like Neighboring gene cyclin D3 Neighboring gene uncharacterized LOC134480552

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

    Bibliography

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    Related articles in PubMed

    1. Mammalian mediator subunit mMED8 is an Elongin BC-interacting protein that can assemble with Cul2 and Rbx1 to reconstitute a ubiquitin ligase. Brower CS, et al. Proc Natl Acad Sci U S A, 2002 Aug 6. PMID 12149480, Free PMC Article
    2. The Mediator complex and transcription regulation. Poss ZC, et al. Crit Rev Biochem Mol Biol, 2013 Nov-Dec. PMID 24088064, Free PMC Article
    3. Structural and functional organization of TRAP220, the TRAP/mediator subunit that is targeted by nuclear receptors. Malik S, et al. Mol Cell Biol, 2004 Sep. PMID 15340084, Free PMC Article
    4. Analysis of early C2C12 myogenesis identifies stably and differentially expressed transcriptional regulators whose knock-down inhibits myoblast differentiation. Rajan S, et al. Physiol Genomics, 2012 Feb 1. PMID 22147266
    5. ATAC and Mediator coactivators form a stable complex and regulate a set of non-coding RNA genes. Krebs AR, et al. EMBO Rep, 2010 Jul. PMID 20508642, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coregulator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    contributes_to ubiquitin protein ligase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein ubiquitination IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in skeletal muscle cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within skeletal muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of core mediator complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of core mediator complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of mediator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of mediator complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of mediator complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of ubiquitin ligase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    mediator of RNA polymerase II transcription subunit 20
    Names
    Trf (TATA binding protein-related factor)-proximal protein homolog
    Trf-proximal protein homolog-like
    ubiquitin specific protease 49

    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_001013178.2 → NP_001013196.1  mediator of RNA polymerase II transcription subunit 20 isoform 1

      See identical proteins and their annotated locations for NP_001013196.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      FN804985, JAXUCZ010000009
      UniProtKB/Swiss-Prot
      Q5XIE9
      UniProtKB/TrEMBL
      A0A0G2JXV5, A6JIJ2
      Related
      ENSRNOP00000018523.5, ENSRNOT00000018523.9
      Conserved Domains (1) summary
      pfam08612
      Location:1 → 198
      Med20; TATA-binding related factor (TRF) of subunit 20 of Mediator complex

    2. NM_001277367.1 → NP_001264296.1  mediator of RNA polymerase II transcription subunit 20 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the coding region, which results in a frameshift, compared to variant 1. It encodes isoform 2, which has a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A6JIJ0
      Related
      ENSRNOP00000110116.1, ENSRNOT00000145080.1
      Conserved Domains (1) summary
      pfam08612
      Location:1 → 54
      Med20; TATA-binding related factor (TRF) of subunit 20 of Mediator complex

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      20867681..20880288 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039083483.2 → XP_038939411.1  mediator of RNA polymerase II transcription subunit 20 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JXV5
      Conserved Domains (1) summary
      pfam08612
      Location:2 → 190
      Med20; TATA-binding related factor (TRF) of subunit 20 of Mediator complex
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5XIE9.1 GenPept UniProtKB/Swiss-Prot:Q5XIE9

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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