Mouse Gene Otx2 (ENSMUST00000227404.1) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Nucleus (By similarity). (from UniProt Q8VD35)
RefSeq Summary (NM_001286482): This gene encodes a protein that belongs to the homeobox family of transcription factors. The encoded protein plays a role in the development and patterning of the head. This protein regulates development of the choroid plexuses in the brain affecting composition of cerebrospinal fluid in the developing brain and is thought to function in the development of sense organs in the embryo. In humans, mutations in this gene are associated with pituitary hormone deficiency. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Nov 2013].
Gencode Transcript: ENSMUST00000227404.1
Gencode Gene: ENSMUSG00000021848.16
Transcript (Including UTRs)
   Position: mm10 chr14:48,657,851-48,673,819 Size: 15,969 Total Exon Count: 5 Strand: -
Coding Region
   Position: mm10 chr14:48,658,706-48,662,540 Size: 3,835 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 (chr14:48,657,851-48,673,819)mRNA (may differ from genome)Protein (289 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
PubMedStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
DESCRIPTION: SubName: Full=Homeobox protein OTX2; SubName: Full=Orthodenticle homolog 2 (Drosophila), isoform CRA_a; SubName: Full=Otx2 protein;
SUBCELLULAR LOCATION: Nucleus (By similarity).

-  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 -113.10361-0.313 Picture PostScript Text
3' UTR -210.80855-0.247 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
IPR003022 - Otx2_TF
IPR003025 - Otx_TF
IPR013851 - Otx_TF_C

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

SCOP Domains:
46689 - Homeodomain-like

ModBase Predicted Comparative 3D Structure on Q8VD35
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 BrowserNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein 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

Cellular Component:
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  LF199910 - JP 2014500723-A/7413: Polycomb-Associated Non-Coding RNAs.
AK053741 - Mus musculus 0 day neonate eyeball cDNA, RIKEN full-length enriched library, clone:E130306E05 product:HOMEOBOX PROTEIN OTX2, full insert sequence.
AK081535 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130035B17 product:HOMEOBOX PROTEIN OTX2 homolog [Mus musculus], full insert sequence.
BC017609 - Mus musculus orthodenticle homolog 2 (Drosophila), mRNA (cDNA clone MGC:27657 IMAGE:4527414), complete cds.
LF204713 - JP 2014500723-A/12216: Polycomb-Associated Non-Coding RNAs.
BC027104 - Mus musculus orthodenticle homolog 2 (Drosophila), mRNA (cDNA clone MGC:38809 IMAGE:5359966), complete cds.
BC029667 - Mus musculus orthodenticle homolog 2 (Drosophila), mRNA (cDNA clone MGC:38894 IMAGE:5362013), complete cds.
AK087527 - Mus musculus 0 day neonate eyeball cDNA, RIKEN full-length enriched library, clone:E130311M15 product:HOMEOBOX PROTEIN OTX2 homolog [Mus musculus], full insert sequence.
LF240659 - JP 2014500723-A/48162: Polycomb-Associated Non-Coding RNAs.
LF240660 - JP 2014500723-A/48163: Polycomb-Associated Non-Coding RNAs.
LF240661 - JP 2014500723-A/48164: Polycomb-Associated Non-Coding RNAs.
LF240662 - JP 2014500723-A/48165: Polycomb-Associated Non-Coding RNAs.
LF240663 - JP 2014500723-A/48166: Polycomb-Associated Non-Coding RNAs.
LF240664 - JP 2014500723-A/48167: Polycomb-Associated Non-Coding RNAs.
X68884 - M.musculus Otx2 mRNA.
LF240666 - JP 2014500723-A/48169: Polycomb-Associated Non-Coding RNAs.
AK044621 - Mus musculus adult retina cDNA, RIKEN full-length enriched library, clone:A930027L18 product:unclassifiable, full insert sequence.
MA435487 - JP 2018138019-A/7413: Polycomb-Associated Non-Coding RNAs.
MA440290 - JP 2018138019-A/12216: Polycomb-Associated Non-Coding RNAs.
MA476236 - JP 2018138019-A/48162: Polycomb-Associated Non-Coding RNAs.
MA476237 - JP 2018138019-A/48163: Polycomb-Associated Non-Coding RNAs.
MA476238 - JP 2018138019-A/48164: Polycomb-Associated Non-Coding RNAs.
MA476239 - JP 2018138019-A/48165: Polycomb-Associated Non-Coding RNAs.
MA476240 - JP 2018138019-A/48166: Polycomb-Associated Non-Coding RNAs.
MA476241 - JP 2018138019-A/48167: Polycomb-Associated Non-Coding RNAs.
MA476243 - JP 2018138019-A/48169: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AK081535, mCG_12117, Q8VD35, Q8VD35_MOUSE, uc288thm.1
UCSC ID: uc288thm.1
RefSeq Accession: NM_001286482
Protein: Q8VD35 CCDS: CCDS49473.1, CCDS70575.1

+  Gene Model Information
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