Mouse Gene Eomes (ENSMUST00000111763.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus eomesodermin (Eomes), transcript variant 2, mRNA. (from RefSeq NM_001164789)
Gencode Transcript: ENSMUST00000111763.7
Gencode Gene: ENSMUSG00000032446.14
Transcript (Including UTRs)
   Position: mm10 chr9:118,478,212-118,485,366 Size: 7,155 Total Exon Count: 6 Strand: +
Coding Region
   Position: mm10 chr9:118,478,660-118,485,012 Size: 6,353 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr9:118,478,212-118,485,366)mRNA (may differ from genome)Protein (688 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Eomesodermin homolog; AltName: Full=T-box brain protein 2; Short=T-brain-2; Short=TBR-2;
FUNCTION: Functions as a transcriptional activator playing a crucial role during development. Functions in trophoblast differentiation and later in gastrulation, regulating both mesoderm delamination and endoderm specification. Plays a role in brain development being required for the specification and the proliferation of the intermediate progenitor cells and their progeny in the cerebral cortex. Also involved in the differentiation of CD8+ T-cells during immune response regulating the expression of lytic effector genes.
TISSUE SPECIFICITY: Expressed in CD8+ T-cells.
DEVELOPMENTAL STAGE: Originally expressed in the trophoectoderm of the blastocyst and later in the extraembryonic ectoderm of the early post-implantation embryo. In the embryo proper, expressed in the posterior part of the epiblast. During gastrulation, extends distally into the primitive streak and nascent mesoderm. Also expressed in the developing forebrain and the olfactory lobes. Expressed at E12.5 and E14.5 in the forebrain.
INDUCTION: Up-regulated in CD8+ T-cells upon activation.
DISRUPTION PHENOTYPE: Embryonic lethal due to peri-implantation defects. Mutant embryos arrest soon after implantation and fail to form organized embryonic or extraembryonic structures. Conditional mutants, with expression abrogated in the inner cell mass of embryos from early implantation stages onward, display gastrulation defects.
SIMILARITY: Contains 1 T-box DNA-binding 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 -157.50448-0.352 Picture PostScript Text
3' UTR -79.90354-0.226 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
IPR008967 - p53-like_TF_DNA-bd
IPR001699 - TF_T-box
IPR018186 - TF_T-box_CS

Pfam Domains:
PF00907 - T-box
PF16176 - T-box transcription factor-associated

SCOP Domains:
49417 - p53-like transcription factors

ModBase Predicted Comparative 3D Structure on O54839
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     
Protein SequenceProtein Sequence    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding
GO:0001102 RNA polymerase II activating transcription factor binding
GO:0001191 transcriptional repressor activity, RNA polymerase II transcription factor binding
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001706 endoderm formation
GO:0001707 mesoderm formation
GO:0001714 endodermal cell fate specification
GO:0001824 blastocyst development
GO:0001829 trophectodermal cell differentiation
GO:0002250 adaptive immune response
GO:0002302 CD8-positive, alpha-beta T cell differentiation involved in immune response
GO:0002376 immune system process
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0007275 multicellular organism development
GO:0007369 gastrulation
GO:0007420 brain development
GO:0010002 cardioblast differentiation
GO:0010468 regulation of gene expression
GO:0019827 stem cell population maintenance
GO:0021772 olfactory bulb development
GO:0021796 cerebral cortex regionalization
GO:0021895 cerebral cortex neuron differentiation
GO:0030154 cell differentiation
GO:0032609 interferon-gamma production
GO:0035914 skeletal muscle cell differentiation
GO:0045597 positive regulation of cell differentiation
GO:0045664 regulation of neuron differentiation
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0050767 regulation of neurogenesis
GO:0060706 cell differentiation involved in embryonic placenta development
GO:0060809 mesodermal to mesenchymal transition involved in gastrulation

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  LF202940 - JP 2014500723-A/10443: Polycomb-Associated Non-Coding RNAs.
LF197857 - JP 2014500723-A/5360: Polycomb-Associated Non-Coding RNAs.
AB031037 - Mus musculus mRNA for Tbr2, complete cds.
BC094319 - Mus musculus eomesodermin homolog (Xenopus laevis), mRNA (cDNA clone MGC:106424 IMAGE:5721456), complete cds.
LF309993 - JP 2014500723-A/117496: Polycomb-Associated Non-Coding RNAs.
AK089817 - Mus musculus activated spleen cDNA, RIKEN full-length enriched library, clone:F830028H02 product:TBR2 homolog [Mus musculus], full insert sequence.
LF309994 - JP 2014500723-A/117497: Polycomb-Associated Non-Coding RNAs.
AK134951 - Mus musculus adult male olfactory brain cDNA, RIKEN full-length enriched library, clone:6430526G07 product:eomesodermin homolog (Xenopus laevis), full insert sequence.
AK043327 - Mus musculus 7 days neonate cerebellum cDNA, RIKEN full-length enriched library, clone:A730085J21 product:eomesodermin homolog (Xenopus laevis), full insert sequence.
AK143454 - Mus musculus 10 days neonate olfactory brain cDNA, RIKEN full-length enriched library, clone:E530020J23 product:eomesodermin homolog (Xenopus laevis), full insert sequence.
AF013281 - Mus musculus eomesodermin mRNA, partial cds.
LF309995 - JP 2014500723-A/117498: Polycomb-Associated Non-Coding RNAs.
AY836552 - Mus musculus transcription factor eomesodermin (Eomes) mRNA, partial cds.
LF309998 - JP 2014500723-A/117501: Polycomb-Associated Non-Coding RNAs.
AK081881 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130084G11 product:eomesodermin homolog (Xenopus laevis), full insert sequence.
MA438517 - JP 2018138019-A/10443: Polycomb-Associated Non-Coding RNAs.
MA433434 - JP 2018138019-A/5360: Polycomb-Associated Non-Coding RNAs.
MA545570 - JP 2018138019-A/117496: Polycomb-Associated Non-Coding RNAs.
MA545571 - JP 2018138019-A/117497: Polycomb-Associated Non-Coding RNAs.
MA545572 - JP 2018138019-A/117498: Polycomb-Associated Non-Coding RNAs.
MA545575 - JP 2018138019-A/117501: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: EOMES_MOUSE, NM_001164789, O54839, Q3UPL1, Q52KJ1, Q8BN22, Q9JJL1, Q9QYG7, Tbr2, uc009rzp.1, uc009rzp.2, uc009rzp.3
UCSC ID: uc009rzp.3
RefSeq Accession: NM_001164789
Protein: O54839 (aka EOMES_MOUSE)
CCDS: CCDS23603.1, CCDS52960.1

-  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.