Mouse Gene Evx1 (ENSMUST00000031787.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus even-skipped homeobox 1 (Evx1), mRNA. (from RefSeq NM_007966)
Gencode Transcript: ENSMUST00000031787.7
Gencode Gene: ENSMUSG00000005503.8
Transcript (Including UTRs)
   Position: mm10 chr6:52,313,498-52,318,378 Size: 4,881 Total Exon Count: 3 Strand: +
Coding Region
   Position: mm10 chr6:52,313,845-52,317,099 Size: 3,255 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:52,313,498-52,318,378)mRNA (may differ from genome)Protein (416 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: EVX1_MOUSE
DESCRIPTION: RecName: Full=Homeobox even-skipped homolog protein 1; AltName: Full=EVX-1;
FUNCTION: May play a role in the specification of neuronal cell types. May play a role in the dorsoventral specification of mesodermal cell fate.
SUBCELLULAR LOCATION: Nucleus.
DEVELOPMENTAL STAGE: Shows a graded distribution in the primitive streak and in cells lateral to it. It is not detected in cells along the A-P axis of the embryo anterior to the primitive streak, except at E7.5 when there is transient expression in the head process. The highest levels of expression are found within the proximal (posterior) portion of the primitive streak and cells near it, with expression levels decreasing more distally (anteriorly).
SIMILARITY: Belongs to the even-skipped homeobox family.
SIMILARITY: Contains 1 homeobox DNA-binding domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  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 -145.60347-0.420 Picture PostScript Text
3' UTR -506.501279-0.396 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
IPR020479 - Homeobox_metazoa
IPR001356 - Homeodomain
IPR009057 - Homeodomain-like

Pfam Domains:
PF00046 - Homeobox domain

SCOP Domains:
48695 - Multiheme cytochromes
46689 - Homeodomain-like

ModBase Predicted Comparative 3D Structure on P23683
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 BrowserNo orthologNo orthologGenome BrowserGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
GenBank EnsemblEnsemblWormBase 
Protein Sequence  Protein SequenceProtein Sequence 
Alignment  AlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0006355 regulation of transcription, DNA-templated
GO:0007275 multicellular organism development
GO:0009792 embryo development ending in birth or egg hatching
GO:0021913 regulation of transcription from RNA polymerase II promoter involved in ventral spinal cord interneuron specification
GO:0045944 positive regulation of transcription from RNA polymerase II promoter

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  LF203682 - JP 2014500723-A/11185: Polycomb-Associated Non-Coding RNAs.
LF202640 - JP 2014500723-A/10143: Polycomb-Associated Non-Coding RNAs.
X54239 - M.musculus mRNA for Evx1 protein.
BC126907 - Mus musculus even skipped homeotic gene 1 homolog, mRNA (cDNA clone MGC:130611 IMAGE:40059181), complete cds.
MA439259 - JP 2018138019-A/11185: Polycomb-Associated Non-Coding RNAs.
MA438217 - JP 2018138019-A/10143: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: EVX1_MOUSE, NM_007966, P23683, uc009byv.1
UCSC ID: uc009byv.1
RefSeq Accession: NM_007966
Protein: P23683 (aka EVX1_MOUSE)
CCDS: CCDS20149.1

-  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.