Mouse Gene Crx (ENSMUST00000044434.12) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus cone-rod homeobox (Crx), transcript variant 1, mRNA. (from RefSeq NM_007770)
Gencode Transcript: ENSMUST00000044434.12
Gencode Gene: ENSMUSG00000041578.15
Transcript (Including UTRs)
   Position: mm10 chr7:15,865,947-15,879,968 Size: 14,022 Total Exon Count: 4 Strand: -
Coding Region
   Position: mm10 chr7:15,867,780-15,871,243 Size: 3,464 Coding Exon Count: 3 

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 (chr7:15,865,947-15,879,968)mRNA (may differ from genome)Protein (299 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
MGIPubMedStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: Q543C9_MOUSE
DESCRIPTION: SubName: Full=Cone-rod homeobox containing gene;
SUBCELLULAR LOCATION: Nucleus (By similarity).

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -56.00186-0.301 Picture PostScript Text
3' UTR -551.401833-0.301 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
IPR013851 - Otx_TF_C

Pfam Domains:
PF00046 - Homeobox domain
PF03529 - Otx1 transcription factor

SCOP Domains:
46689 - Homeodomain-like

ModBase Predicted Comparative 3D Structure on Q543C9
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:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0006355 regulation of transcription, DNA-templated
GO:0007275 multicellular organism development
GO:0007601 visual perception
GO:0007623 circadian rhythm

Cellular Component:
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  BC016502 - Mus musculus cone-rod homeobox containing gene, mRNA (cDNA clone MGC:25283 IMAGE:4527863), complete cds.
AK139691 - Mus musculus 2 cells egg cDNA, RIKEN full-length enriched library, clone:B020011F08 product:cone-rod homeobox containing gene, full insert sequence.
AK053533 - Mus musculus 0 day neonate eyeball cDNA, RIKEN full-length enriched library, clone:E130106I11 product:cone-rod homeobox containing gene, full insert sequence.
U77615 - Mus musculus homeodomain protein (crx) mRNA, complete cds.
BC035258 - Mus musculus, clone IMAGE:5364653, mRNA.

-  Other Names for This Gene
  Alternate Gene Symbols: mCG_2059, NM_007770, Q543C9, Q543C9_MOUSE, uc009fgm.1, uc009fgm.2, uc009fgm.3
UCSC ID: uc009fgm.3
RefSeq Accession: NM_007770
Protein: Q543C9 CCDS: CCDS20840.1

+  Gene Model Information
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-  Methods, Credits, and Use Restrictions
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