Mouse Gene Sox1 (ENSMUST00000180353.1) Description and Page Index
  Description: Mus musculus SRY (sex determining region Y)-box 1 (Sox1), mRNA. (from RefSeq NM_009233)
Gencode Transcript: ENSMUST00000180353.1
Gencode Gene: ENSMUSG00000096014.1
Transcript (Including UTRs)
   Position: mm10 chr8:12,395,295-12,400,126 Size: 4,832 Total Exon Count: 1 Strand: +
Coding Region
   Position: mm10 chr8:12,396,361-12,397,536 Size: 1,176 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2019-09-19

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr8:12,395,295-12,400,126)mRNA (may differ from genome)Protein (391 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Transcription factor SOX-1;
FUNCTION: Transcriptional activator. May function as a switch in neuronal development. Keeps neural cells undifferentiated by counteracting the activity of proneural proteins and suppresses neuronal differentiation (By similarity).
TISSUE SPECIFICITY: Mainly in the developing central nervous system. Expressed in developing urogenital ridge.
SIMILARITY: Contains 1 HMG box DNA-binding domain.

-  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 -416.601066-0.391 Picture PostScript Text
3' UTR -740.302590-0.286 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
IPR009071 - HMG_superfamily
IPR022097 - TF_SOX

Pfam Domains:
PF00505 - HMG (high mobility group) box
PF09011 - HMG-box domain
PF12336 - SOX transcription factor

SCOP Domains:
47095 - HMG-box

ModBase Predicted Comparative 3D Structure on P53783
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:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0001046 core promoter sequence-specific DNA binding
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0003677 DNA binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0001764 neuron migration
GO:0002089 lens morphogenesis in camera-type eye
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0007399 nervous system development
GO:0021521 ventral spinal cord interneuron specification
GO:0021879 forebrain neuron differentiation
GO:0021884 forebrain neuron development
GO:0030900 forebrain development
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:1990830 cellular response to leukemia inhibitory factor

Cellular Component:
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  AB108672 - Mus musculus Sox1 mRNA for transcriptional factor SOX1, complete cds.
BC172600 - Synthetic construct Mus musculus clone IMAGE:100069408, MGC:199310 SRY-box containing gene 1 (Sox1) mRNA, encodes complete protein.
BC172706 - Synthetic construct Mus musculus clone IMAGE:100069514, MGC:199416 SRY-box containing gene 1 (Sox1) mRNA, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_009233, P53783, Sox-1, SOX1_MOUSE, uc009kwa.1, uc009kwa.2, uc009kwa.3
UCSC ID: uc009kwa.3
RefSeq Accession: NM_009233
Protein: P53783 (aka SOX1_MOUSE)
CCDS: CCDS57605.1

-  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.