Mouse Gene Arx (ENSMUST00000046565.12) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus aristaless related homeobox (Arx), transcript variant 1, mRNA. (from RefSeq NM_007492)
RefSeq Summary (NM_007492): This gene encodes a transcription factor that plays an important role in the development of forebrain. Male mice lacking this gene have smaller brains, olfactory bulbs and testes, and die within half a day after birth. Mice lacking this gene specifically in ganglionic eminence-derived neurons, including cortical interneurons, develop seizures. Mutations in this gene have been demonstrated to cause mouse phenotypes resembling human X-linked lissencephaly and cognitive disability with epilepsy. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2015].
Gencode Transcript: ENSMUST00000046565.12
Gencode Gene: ENSMUSG00000035277.15
Transcript (Including UTRs)
   Position: mm10 chrX:93,286,496-93,298,357 Size: 11,862 Total Exon Count: 5 Strand: +
Coding Region
   Position: mm10 chrX:93,286,728-93,297,403 Size: 10,676 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:93,286,496-93,298,357)mRNA (may differ from genome)Protein (564 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
MGIPubMedStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: ARX_MOUSE
DESCRIPTION: RecName: Full=Homeobox protein ARX; AltName: Full=Aristaless-related homeobox;
FUNCTION: Transcription factor required for normal brain development. May be important for maintenance of specific neuronal subtypes in the cerebral cortex and axonal guidance in the floor plate (By similarity).
SUBCELLULAR LOCATION: Nucleus (By similarity).
SIMILARITY: Belongs to the paired homeobox family. Bicoid subfamily.
SIMILARITY: Contains 1 homeobox DNA-binding domain.

-  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 -74.00232-0.319 Picture PostScript Text
3' UTR -235.70954-0.247 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
IPR017970 - Homeobox_CS
IPR001356 - Homeodomain
IPR009057 - Homeodomain-like
IPR003654 - OAR_dom

Pfam Domains:
PF00046 - Homeobox domain
PF03826 - OAR domain

SCOP Domains:
46689 - Homeodomain-like

ModBase Predicted Comparative 3D Structure on O35085
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     
GenBankRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001206 transcriptional repressor activity, RNA polymerase II distal enhancer sequence-specific binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001764 neuron migration
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0007275 multicellular organism development
GO:0007399 nervous system development
GO:0007411 axon guidance
GO:0010628 positive regulation of gene expression
GO:0021759 globus pallidus development
GO:0021772 olfactory bulb development
GO:0021800 cerebral cortex tangential migration
GO:0021831 embryonic olfactory bulb interneuron precursor migration
GO:0021846 cell proliferation in forebrain
GO:0021853 cerebral cortex GABAergic interneuron migration
GO:0030154 cell differentiation
GO:0030900 forebrain development
GO:0042127 regulation of cell proliferation
GO:0044241 lipid digestion
GO:0046622 positive regulation of organ growth
GO:0072148 epithelial cell fate commitment

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AK033290 - Mus musculus 15 days embryo male testis cDNA, RIKEN full-length enriched library, clone:8030486M05 product:unclassifiable, full insert sequence.
AB006103 - Mus musculus mRNA for Arx homeoprotein, complete cds.
BC052033 - Mus musculus aristaless related homeobox, mRNA (cDNA clone MGC:62389 IMAGE:5707995), complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: A2A4G9, ARX_MOUSE, NM_007492, O35085, Q9QYT4, uc009tsr.1, uc009tsr.2, uc009tsr.3, uc009tsr.4
UCSC ID: uc009tsr.4
RefSeq Accession: NM_007492
Protein: O35085 (aka ARX_MOUSE)
CCDS: CCDS30271.1

+  Gene Model Information
  Press "+" in the title bar above to open this section.

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