Human Gene MED20 (uc003ork.3) Description and Page Index
  Description: Homo sapiens mediator complex subunit 20 (MED20), mRNA.
RefSeq Summary (NM_004275): This gene encodes a component of the mediator complex (also known as TRAP, SMCC, DRIP, or ARC), a transcriptional coactivator complex thought to be required for the expression of almost all genes. The mediator complex is recruited by transcriptional activators or nuclear receptors to induce gene expression, by interacting with RNA polymerase II and promoting the formation of a transcriptional pre-initiation complex. A mutation in this gene has been associated with a novel infantile-onset neurodegenerative movement disorder. Alternatively spliced transcript variants have been identified. [provided by RefSeq, Mar 2015].
Transcript (Including UTRs)
   Position: hg19 chr6:41,873,092-41,888,877 Size: 15,786 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr6:41,874,810-41,888,756 Size: 13,947 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:41,873,092-41,888,877)mRNA (may differ from genome)Protein (212 aa)
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UniProtKB

-  Comments and Description Text from UniProtKB
  ID: MED20_HUMAN
DESCRIPTION: RecName: Full=Mediator of RNA polymerase II transcription subunit 20; AltName: Full=Mediator complex subunit 20; AltName: Full=TRF-proximal protein homolog; Short=hTRFP;
FUNCTION: Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.
SUBUNIT: Interacts with PPARG (By similarity). Component of the Mediator complex, which is composed of MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The MED12, MED13, CCNC and CDK8 subunits form a distinct module termed the CDK8 module. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP.
INTERACTION: Q9NX70:MED29; NbExp=5; IntAct=EBI-394644, EBI-394656;
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the Mediator complex subunit 20 family.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 6.87 RPKM in Adrenal Gland
Total median expression: 196.66 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -38.00121-0.314 Picture PostScript Text
3' UTR -516.211718-0.300 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR013921 - Mediator_Med20

Pfam Domains:
PF08612 - TATA-binding related factor (TRF) of subunit 20 of Mediator complex

ModBase Predicted Comparative 3D Structure on Q9H944
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsemblFlyBaseWormBase 
 Protein SequenceProtein SequenceProtein SequenceProtein Sequence 
 AlignmentAlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001104 RNA polymerase II transcription cofactor activity
GO:0003713 transcription coactivator activity
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0005515 protein binding
GO:0061630 ubiquitin protein ligase activity

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006366 transcription from RNA polymerase II promoter
GO:0006367 transcription initiation from RNA polymerase II promoter
GO:0016567 protein ubiquitination
GO:0035914 skeletal muscle cell differentiation

Cellular Component:
GO:0000151 ubiquitin ligase complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0016592 mediator complex


-  Descriptions from all associated GenBank mRNAs
  BC063509 - Homo sapiens cDNA clone IMAGE:3862384, partial cds.
BC012618 - Homo sapiens mediator complex subunit 20, mRNA (cDNA clone MGC:13654 IMAGE:4272961), complete cds.
BC033498 - Homo sapiens Trf (TATA binding protein-related factor)-proximal homolog (Drosophila), mRNA (cDNA clone IMAGE:5174972).
BC015189 - Homo sapiens Trf (TATA binding protein-related factor)-proximal homolog (Drosophila), mRNA (cDNA clone IMAGE:4077017).
AL050196 - Homo sapiens mRNA; cDNA DKFZp586D2223 (from clone DKFZp586D2223).
AJ420544 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1476271.
AF116602 - Homo sapiens PRO0213 mRNA, complete cds.
BC032552 - Homo sapiens mediator complex subunit 20, mRNA (cDNA clone MGC:45256 IMAGE:5555309), complete cds.
BC019866 - Homo sapiens mediator complex subunit 20, mRNA (cDNA clone MGC:29869 IMAGE:4470496), complete cds.
AK097385 - Homo sapiens cDNA FLJ40066 fis, clone TESOP2000510, highly similar to TRF-proximal protein homolog.
AK023092 - Homo sapiens cDNA FLJ13030 fis, clone NT2RP3001111, highly similar to Homo sapiens TRF-proximal protein mRNA.
JD054813 - Sequence 35837 from Patent EP1572962.
JD250311 - Sequence 231335 from Patent EP1572962.
JD092275 - Sequence 73299 from Patent EP1572962.
JD273434 - Sequence 254458 from Patent EP1572962.
JD430748 - Sequence 411772 from Patent EP1572962.
JD501197 - Sequence 482221 from Patent EP1572962.
JD089173 - Sequence 70197 from Patent EP1572962.
JD313817 - Sequence 294841 from Patent EP1572962.
JD233881 - Sequence 214905 from Patent EP1572962.
JD493041 - Sequence 474065 from Patent EP1572962.
JD248398 - Sequence 229422 from Patent EP1572962.
AK307070 - Homo sapiens cDNA, FLJ97018.
AK300573 - Homo sapiens cDNA FLJ60159 complete cds, highly similar to TRF-proximal protein homolog.
BC040950 - Homo sapiens mediator complex subunit 20, mRNA (cDNA clone MGC:48835 IMAGE:6042296), complete cds.
JD236842 - Sequence 217866 from Patent EP1572962.
JD078374 - Sequence 59398 from Patent EP1572962.
JD403131 - Sequence 384155 from Patent EP1572962.
AK293412 - Homo sapiens cDNA FLJ53711 complete cds, highly similar to TRF-proximal protein homolog.
JD259679 - Sequence 240703 from Patent EP1572962.
JD258545 - Sequence 239569 from Patent EP1572962.
AF097725 - Homo sapiens TRF-proximal protein mRNA, complete cds.
JD156946 - Sequence 137970 from Patent EP1572962.
KJ892780 - Synthetic construct Homo sapiens clone ccsbBroadEn_02174 MED20 gene, encodes complete protein.
EU446931 - Synthetic construct Homo sapiens clone IMAGE:100070333; IMAGE:100012140; FLH257197.01L mediator complex subunit 20 (MED20) gene, encodes complete protein.
AB463862 - Synthetic construct DNA, clone: pF1KB7573, Homo sapiens MED20 gene for mediator complex subunit 20, without stop codon, in Flexi system.
JD214388 - Sequence 195412 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9H944 (Reactome details) participates in the following event(s):

R-HSA-212380 Formation of TRAP coactivator complex
R-HSA-381309 PPARG:RXRA heterodimer binds to fatty acid-like ligands
R-HSA-212436 Generic Transcription Pathway
R-HSA-381340 Transcriptional regulation of white adipocyte differentiation
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-1266738 Developmental Biology
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: MED20_HUMAN, NM_004275, NP_004266, O95821, Q5T8J4, Q9H944, Q9Y429, TRFP
UCSC ID: uc003ork.3
RefSeq Accession: NM_004275
Protein: Q9H944 (aka MED20_HUMAN)
CCDS: CCDS4862.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_004275.3
exon count: 4CDS single in 3' UTR: no RNA size: 2478
ORF size: 639CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1292.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.