Mouse Gene Emcn (ENSMUST00000122064.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus endomucin (Emcn), transcript variant 1, mRNA. (from RefSeq NM_001163522)
Gencode Transcript: ENSMUST00000122064.7
Gencode Gene: ENSMUSG00000054690.17
Transcript (Including UTRs)
   Position: mm10 chr3:137,341,067-137,432,185 Size: 91,119 Total Exon Count: 12 Strand: +
Coding Region
   Position: mm10 chr3:137,341,240-137,427,339 Size: 86,100 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:137,341,067-137,432,185)mRNA (may differ from genome)Protein (261 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: MUCEN_MOUSE
DESCRIPTION: RecName: Full=Endomucin; AltName: Full=Endomucin-1/2; AltName: Full=Mucin-14; Short=MUC-14; Flags: Precursor;
FUNCTION: Endothelial sialomucin, also called endomucin or mucin- like sialoglycoprotein, which interferes with the assembly of focal adhesion complexes and inhibits interaction between cells and the extracellular matrix (By similarity).
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (Potential).
TISSUE SPECIFICITY: Highly expressed in heart and kidney, followed by brain, spleen, thymus, liver and lung. Exclusively expressed in endothelial cells.
PTM: Highly O-glycosylated. Sialic acid-rich glycoprotein.

-  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           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -48.50173-0.280 Picture PostScript Text
3' UTR -400.101629-0.246 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
IPR010740 - Endomucin

Pfam Domains:
PF07010 - Endomucin

ModBase Predicted Comparative 3D Structure on Q9R0H2
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 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:0030246 carbohydrate binding

Biological Process:
GO:0001525 angiogenesis
GO:0030155 regulation of cell adhesion
GO:0098609 cell-cell adhesion

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK145825 - Mus musculus 11 days pregnant adult female placenta cDNA, RIKEN full-length enriched library, clone:I530003F17 product:endomucin, full insert sequence.
AK002616 - Mus musculus adult male kidney cDNA, RIKEN full-length enriched library, clone:0610012K22 product:endomucin, full insert sequence.
AK029348 - Mus musculus 0 day neonate head cDNA, RIKEN full-length enriched library, clone:4833401H07 product:endomucin, full insert sequence.
BC003706 - Mus musculus endomucin, mRNA (cDNA clone MGC:5673 IMAGE:3485788), complete cds.
AB034693 - Mus musculus mRNA for endomucin-1, complete cds.
AF060883 - Mus musculus endomucin mRNA, complete cds.
AK164422 - Mus musculus 12 days embryo eyeball cDNA, RIKEN full-length enriched library, clone:D230017A01 product:endomucin, full insert sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: Muc14, MUCEN_MOUSE, NM_001163522, Q78KL2, Q9DCN9, Q9R0H2, Q9ULC1, Q9Z2I1, uc008rml.1, uc008rml.2, uc008rml.3
UCSC ID: uc008rml.3
RefSeq Accession: NM_001163522
Protein: Q9R0H2 (aka MUCEN_MOUSE or EMCN_MOUSE)
CCDS: CCDS17861.1, CCDS51075.1

-  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.