Mouse Gene Thrap3 (ENSMUST00000080919.11) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus thyroid hormone receptor associated protein 3 (Thrap3), transcript variant 1, mRNA. (from RefSeq NM_146153)
Gencode Transcript: ENSMUST00000080919.11
Gencode Gene: ENSMUSG00000043962.16
Transcript (Including UTRs)
   Position: mm10 chr4:126,164,082-126,202,760 Size: 38,679 Total Exon Count: 11 Strand: -
Coding Region
   Position: mm10 chr4:126,165,396-126,186,571 Size: 21,176 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:126,164,082-126,202,760)mRNA (may differ from genome)Protein (951 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: TR150_MOUSE
DESCRIPTION: RecName: Full=Thyroid hormone receptor-associated protein 3; AltName: Full=Thyroid hormone receptor-associated protein complex 150 kDa component; Short=Trap150;
FUNCTION: Plays a role in transcriptional coactivation (By similarity).
SUBUNIT: Subunit of the large multiprotein complex TRAP (By similarity).
SUBCELLULAR LOCATION: Nucleus (Potential).

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -79.60208-0.383 Picture PostScript Text
3' UTR -432.501314-0.329 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
IPR026667 - THRAP3

Pfam Domains:
PF15440 - THRAP3/BCLAF1 family

ModBase Predicted Comparative 3D Structure on Q569Z6
FrontTopSide
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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsembl   
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0001046 core promoter sequence-specific DNA binding
GO:0001104 RNA polymerase II transcription cofactor activity
GO:0003712 transcription cofactor activity
GO:0003713 transcription coactivator activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0038023 signaling receptor activity
GO:0046966 thyroid hormone receptor binding
GO:0051219 phosphoprotein binding

Biological Process:
GO:0000381 regulation of alternative mRNA splicing, via spliceosome
GO:0000956 nuclear-transcribed mRNA catabolic process
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0006367 transcription initiation from RNA polymerase II promoter
GO:0006397 mRNA processing
GO:0007623 circadian rhythm
GO:0008380 RNA splicing
GO:0030518 intracellular steroid hormone receptor signaling pathway
GO:0030521 androgen receptor signaling pathway
GO:0042753 positive regulation of circadian rhythm
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048026 positive regulation of mRNA splicing, via spliceosome
GO:0048255 mRNA stabilization
GO:0048511 rhythmic process

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0016592 mediator complex
GO:0016607 nuclear speck
GO:0035145 exon-exon junction complex


-  Descriptions from all associated GenBank mRNAs
  BC040346 - Mus musculus thyroid hormone receptor associated protein 3, mRNA (cDNA clone IMAGE:3498255), with apparent retained intron.
BC033472 - Mus musculus thyroid hormone receptor associated protein 3, mRNA (cDNA clone IMAGE:4947317), with apparent retained intron.
BC092239 - Mus musculus thyroid hormone receptor associated protein 3, mRNA (cDNA clone MGC:116673 IMAGE:30659321), complete cds.
AK153954 - Mus musculus 2 days neonate thymus thymic cells cDNA, RIKEN full-length enriched library, clone:E430012L16 product:thyroid hormone receptor associated protein 3, full insert sequence.
AK169008 - Mus musculus 17 days embryo kidney cDNA, RIKEN full-length enriched library, clone:I920073L08 product:thyroid hormone receptor associated protein 3, full insert sequence.
AK046010 - Mus musculus adult male corpora quadrigemina cDNA, RIKEN full-length enriched library, clone:B230333E16 product:THYROID HORMONE RECEPTOR-ASSOCIATED PROTEIN COMPLEX COMPONENT TRAP150 homolog [Homo sapiens], full insert sequence.
BC048391 - Mus musculus thyroid hormone receptor associated protein 3, mRNA (cDNA clone IMAGE:6314114), complete cds.
AK197465 - Mus musculus cDNA, clone:Y1G0125D05, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000064325, based on BLAT search.
BC012655 - Mus musculus thyroid hormone receptor associated protein 3, mRNA (cDNA clone IMAGE:3669867), partial cds.
AK034044 - Mus musculus adult male diencephalon cDNA, RIKEN full-length enriched library, clone:9330151F09 product:thyroid hormone receptor associated protein 3, full insert sequence.
AK079601 - Mus musculus adult male spinal cord cDNA, RIKEN full-length enriched library, clone:A330062C13 product:weakly similar to 2610102K23RIK PROTEIN (FRAGMENT) [Mus musculus], full insert sequence.
BC026580 - Mus musculus thyroid hormone receptor associated protein 3, mRNA (cDNA clone IMAGE:4954840), complete cds.
AK050208 - Mus musculus adult male liver tumor cDNA, RIKEN full-length enriched library, clone:C730026O12 product:THYROID HORMONE RECEPTOR-ASSOCIATED PROTEIN COMPLEX COMPONENT TRAP150 homolog [Homo sapiens], full insert sequence.

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

Protein Q569Z6 (Reactome details) participates in the following event(s):

R-MMU-556760 Pparg:Rxra heterodimer binds to fatty acids

-  Other Names for This Gene
  Alternate Gene Symbols: NM_146153, Q569Z6, TR150_MOUSE, Trap150, uc008usv.1, uc008usv.2, uc008usv.3
UCSC ID: uc008usv.3
RefSeq Accession: NM_146153
Protein: Q569Z6 (aka TR150_MOUSE)
CCDS: CCDS18645.1

-  Gene Model Information
  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.