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
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-  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: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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