Mouse Gene Brd4 (ENSMUST00000121285.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus bromodomain containing 4 (Brd4), transcript variant 1, mRNA. (from RefSeq NM_020508)
RefSeq Summary (NM_020508): This gene was temporarily named bromodomain-containing 5 (Brd5) and was renamed bromodomain-containing 4 (Brd4). [provided by RefSeq, Jul 2008].
Gencode Transcript: ENSMUST00000121285.7
Gencode Gene: ENSMUSG00000024002.18
Transcript (Including UTRs)
   Position: mm10 chr17:32,196,274-32,284,109 Size: 87,836 Total Exon Count: 20 Strand: -
Coding Region
   Position: mm10 chr17:32,197,752-32,229,701 Size: 31,950 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:32,196,274-32,284,109)mRNA (may differ from genome)Protein (1400 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: BRD4_MOUSE
DESCRIPTION: RecName: Full=Bromodomain-containing protein 4; AltName: Full=Mitotic chromosome-associated protein; Short=MCAP;
FUNCTION: Plays a role in a process governing chromosomal dynamics during mitosis.
SUBUNIT: Associated with chromosomes during mitosis.
SUBCELLULAR LOCATION: Nucleus.
SIMILARITY: Contains 2 bromo domains.
SIMILARITY: Contains 1 NET domain.

-  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 -69.00241-0.286 Picture PostScript Text
3' UTR -472.801478-0.320 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
IPR001487 - Bromodomain
IPR018359 - Bromodomain_CS

Pfam Domains:
PF00439 - Bromodomain
PF17035 - Bromodomain extra-terminal - transcription regulation
PF17105 - C-terminal domain of bromodomain protein 4

SCOP Domains:
47370 - Bromodomain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2DWW - X-ray 2JNS - NMR 3JVJ - X-ray 3JVK - X-ray 3JVL - X-ray 3JVM - X-ray 3MUK - X-ray 3MUL - X-ray


ModBase Predicted Comparative 3D Structure on Q9ESU6
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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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000993 RNA polymerase II core binding
GO:0002039 p53 binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0004672 protein kinase activity
GO:0004674 protein serine/threonine kinase activity
GO:0005515 protein binding
GO:0008022 protein C-terminus binding
GO:0008353 RNA polymerase II carboxy-terminal domain kinase activity
GO:0034211 GTP-dependent protein kinase activity
GO:0070577 lysine-acetylated histone binding
GO:1990269 RNA polymerase II C-terminal domain phosphoserine binding

Biological Process:
GO:0000083 regulation of transcription involved in G1/S transition of mitotic cell cycle
GO:0001833 inner cell mass cell proliferation
GO:0006325 chromatin organization
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006468 protein phosphorylation
GO:0007059 chromosome segregation
GO:0010971 positive regulation of G2/M transition of mitotic cell cycle
GO:0032968 positive regulation of transcription elongation from RNA polymerase II promoter
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0043388 positive regulation of DNA binding
GO:0043983 histone H4-K12 acetylation
GO:0044154 histone H3-K14 acetylation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0046777 protein autophosphorylation
GO:0050727 regulation of inflammatory response
GO:1901407 regulation of phosphorylation of RNA polymerase II C-terminal domain

Cellular Component:
GO:0000790 nuclear chromatin
GO:0000794 condensed nuclear chromosome
GO:0005634 nucleus
GO:0005665 DNA-directed RNA polymerase II, core complex
GO:0005694 chromosome
GO:0008024 cyclin/CDK positive transcription elongation factor complex
GO:0005730 nucleolus


-  Descriptions from all associated GenBank mRNAs
  LF201018 - JP 2014500723-A/8521: Polycomb-Associated Non-Coding RNAs.
AF461395 - Mus musculus bromodomain-containing protein BRD4 long variant (Brd4) mRNA, complete cds.
AK147545 - Mus musculus 14 days pregnant adult female placenta cDNA, RIKEN full-length enriched library, clone:M5C1072G19 product:bromodomain containing 4, full insert sequence.
AF273217 - Mus musculus cell proliferation related protein CAP (Cap) mRNA, complete cds.
AF461396 - Mus musculus bromodomain-containing protein BRD4 short variant (Brd4) mRNA, complete cds.
BC138835 - Mus musculus bromodomain containing 4, mRNA (cDNA clone MGC:170462 IMAGE:8861857), complete cds.
BC138834 - Mus musculus bromodomain containing 4, mRNA (cDNA clone MGC:170461 IMAGE:8861856), complete cds.
BC013666 - Mus musculus bromodomain containing 4, mRNA (cDNA clone IMAGE:4020483), with apparent retained intron.
BC082782 - Mus musculus bromodomain containing 4, mRNA (cDNA clone IMAGE:5389337), partial cds.
BC103773 - Mus musculus bromodomain containing 4, mRNA (cDNA clone IMAGE:6487278), partial cds.
BC011541 - Mus musculus bromodomain containing 4, mRNA (cDNA clone IMAGE:2648506), with apparent retained intron.
AK042431 - Mus musculus 3 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A630091E24 product:bromodomain-containing 4, full insert sequence.
AK154514 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630041P07 product:bromodomain containing 4, full insert sequence.
MA436595 - JP 2018138019-A/8521: Polycomb-Associated Non-Coding RNAs.
AK162710 - Mus musculus adult female vagina cDNA, RIKEN full-length enriched library, clone:9930114P10 product:bromodomain containing 4, full insert sequence.
LF251282 - JP 2014500723-A/58785: Polycomb-Associated Non-Coding RNAs.
AK035000 - Mus musculus 12 days embryo embryonic body between diaphragm region and neck cDNA, RIKEN full-length enriched library, clone:9430072B20 product:bromodomain-containing 4, full insert sequence.
LF251283 - JP 2014500723-A/58786: Polycomb-Associated Non-Coding RNAs.
LF251284 - JP 2014500723-A/58787: Polycomb-Associated Non-Coding RNAs.
LF251285 - JP 2014500723-A/58788: Polycomb-Associated Non-Coding RNAs.
LF251286 - JP 2014500723-A/58789: Polycomb-Associated Non-Coding RNAs.
LF251288 - JP 2014500723-A/58791: Polycomb-Associated Non-Coding RNAs.
LF251289 - JP 2014500723-A/58792: Polycomb-Associated Non-Coding RNAs.
LF251291 - JP 2014500723-A/58794: Polycomb-Associated Non-Coding RNAs.
LF251292 - JP 2014500723-A/58795: Polycomb-Associated Non-Coding RNAs.
X97573 - M.musculus mRNA for fsh-like protein.
LF251308 - JP 2014500723-A/58811: Polycomb-Associated Non-Coding RNAs.
LF251309 - JP 2014500723-A/58812: Polycomb-Associated Non-Coding RNAs.
LF251310 - JP 2014500723-A/58813: Polycomb-Associated Non-Coding RNAs.
LF251311 - JP 2014500723-A/58814: Polycomb-Associated Non-Coding RNAs.
AK187286 - Mus musculus cDNA, clone:Y0G0141A09, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000003726, based on BLAT search.
LF251319 - JP 2014500723-A/58822: Polycomb-Associated Non-Coding RNAs.
LF251320 - JP 2014500723-A/58823: Polycomb-Associated Non-Coding RNAs.
LF251321 - JP 2014500723-A/58824: Polycomb-Associated Non-Coding RNAs.
AK219391 - Mus musculus cDNA, clone:Y2G0148F06, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000003726, based on BLAT search.
AK184145 - Mus musculus cDNA, clone:Y0G0128M24, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000003726, based on BLAT search.
LF251326 - JP 2014500723-A/58829: Polycomb-Associated Non-Coding RNAs.
LF251335 - JP 2014500723-A/58838: Polycomb-Associated Non-Coding RNAs.
LF251336 - JP 2014500723-A/58839: Polycomb-Associated Non-Coding RNAs.
MA486859 - JP 2018138019-A/58785: Polycomb-Associated Non-Coding RNAs.
MA486860 - JP 2018138019-A/58786: Polycomb-Associated Non-Coding RNAs.
MA486861 - JP 2018138019-A/58787: Polycomb-Associated Non-Coding RNAs.
MA486862 - JP 2018138019-A/58788: Polycomb-Associated Non-Coding RNAs.
MA486863 - JP 2018138019-A/58789: Polycomb-Associated Non-Coding RNAs.
MA486865 - JP 2018138019-A/58791: Polycomb-Associated Non-Coding RNAs.
MA486866 - JP 2018138019-A/58792: Polycomb-Associated Non-Coding RNAs.
MA486868 - JP 2018138019-A/58794: Polycomb-Associated Non-Coding RNAs.
MA486869 - JP 2018138019-A/58795: Polycomb-Associated Non-Coding RNAs.
MA486885 - JP 2018138019-A/58811: Polycomb-Associated Non-Coding RNAs.
MA486886 - JP 2018138019-A/58812: Polycomb-Associated Non-Coding RNAs.
MA486887 - JP 2018138019-A/58813: Polycomb-Associated Non-Coding RNAs.
MA486888 - JP 2018138019-A/58814: Polycomb-Associated Non-Coding RNAs.
MA486896 - JP 2018138019-A/58822: Polycomb-Associated Non-Coding RNAs.
MA486897 - JP 2018138019-A/58823: Polycomb-Associated Non-Coding RNAs.
MA486898 - JP 2018138019-A/58824: Polycomb-Associated Non-Coding RNAs.
MA486903 - JP 2018138019-A/58829: Polycomb-Associated Non-Coding RNAs.
MA486912 - JP 2018138019-A/58838: Polycomb-Associated Non-Coding RNAs.
MA486913 - JP 2018138019-A/58839: Polycomb-Associated Non-Coding RNAs.
LF251363 - JP 2014500723-A/58866: Polycomb-Associated Non-Coding RNAs.
MA486940 - JP 2018138019-A/58866: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: BRD4_MOUSE, Mcap, NM_020508, Q8VHF7, Q8VHF8, Q9ESU6, uc008bwa.1, uc008bwa.2, uc008bwa.3, uc008bwa.4
UCSC ID: uc008bwa.4
RefSeq Accession: NM_020508
Protein: Q9ESU6 (aka BRD4_MOUSE)
CCDS: CCDS50057.1, CCDS70784.1

-  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.