Mouse Gene Ccn3 (ENSMUST00000050027.8) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus cellular communication network factor 3 (Ccn3), mRNA. (from RefSeq NM_010930)
Gencode Transcript: ENSMUST00000050027.8
Gencode Gene: ENSMUSG00000037362.8
Transcript (Including UTRs)
   Position: mm10 chr15:54,745,702-54,754,039 Size: 8,338 Total Exon Count: 5 Strand: +
Coding Region
   Position: mm10 chr15:54,745,972-54,752,505 Size: 6,534 Coding Exon Count: 5 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:54,745,702-54,754,039)mRNA (may differ from genome)Protein (354 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: NOV_MOUSE
DESCRIPTION: RecName: Full=Protein NOV homolog; Short=NovH; AltName: Full=CCN family member 3; AltName: Full=Nephroblastoma-overexpressed gene protein homolog; Flags: Precursor;
FUNCTION: Immediate-early protein likely to play a role in cell growth regulation (By similarity).
SUBUNIT: Interacts with FBLN1 (By similarity).
SUBCELLULAR LOCATION: Secreted.
SIMILARITY: Belongs to the CCN family.
SIMILARITY: Contains 1 CTCK (C-terminal cystine knot-like) domain.
SIMILARITY: Contains 1 IGFBP N-terminal domain.
SIMILARITY: Contains 1 TSP type-1 domain.
SIMILARITY: Contains 1 VWFC 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


-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -89.70270-0.332 Picture PostScript Text
3' UTR -360.901534-0.235 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
IPR006208 - Cys_knot
IPR006207 - Cys_knot_C
IPR000867 - IGFBP-like
IPR012395 - IGFBP_CNN
IPR017891 - Insulin_GF-bd_Cys-rich_CS
IPR000884 - Thrombospondin_1_rpt
IPR001007 - VWF_C

Pfam Domains:
PF00007 - Cystine-knot domain
PF00093 - von Willebrand factor type C domain
PF00219 - Insulin-like growth factor binding protein

SCOP Domains:
57603 - FnI-like domain
57184 - Growth factor receptor domain
82895 - TSP-1 type 1 repeat

ModBase Predicted Comparative 3D Structure on Q64299
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:0005112 Notch binding
GO:0005178 integrin binding
GO:0005520 insulin-like growth factor binding
GO:0008083 growth factor activity
GO:0008201 heparin binding

Biological Process:
GO:0001525 angiogenesis
GO:0001558 regulation of cell growth
GO:0002062 chondrocyte differentiation
GO:0007155 cell adhesion
GO:0010468 regulation of gene expression
GO:0010469 regulation of receptor activity
GO:0010761 fibroblast migration
GO:0010832 negative regulation of myotube differentiation
GO:0014909 smooth muscle cell migration
GO:0030308 negative regulation of cell growth
GO:0033627 cell adhesion mediated by integrin
GO:0035767 endothelial cell chemotaxis
GO:0044342 type B pancreatic cell proliferation
GO:0045747 positive regulation of Notch signaling pathway
GO:0046676 negative regulation of insulin secretion
GO:0048659 smooth muscle cell proliferation
GO:0050728 negative regulation of inflammatory response
GO:0060326 cell chemotaxis
GO:0060392 negative regulation of SMAD protein import into nucleus
GO:0060548 negative regulation of cell death
GO:0061484 hematopoietic stem cell homeostasis
GO:0071603 endothelial cell-cell adhesion
GO:0090027 negative regulation of monocyte chemotaxis
GO:1901223 negative regulation of NIK/NF-kappaB signaling
GO:1902731 negative regulation of chondrocyte proliferation
GO:1904057 negative regulation of sensory perception of pain
GO:1990523 bone regeneration

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005737 cytoplasm
GO:0005921 gap junction
GO:0030054 cell junction
GO:0030424 axon
GO:0030425 dendrite
GO:0031012 extracellular matrix
GO:0043025 neuronal cell body
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  AK081944 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130088N23 product:nephroblastoma overexpressed gene, full insert sequence.
AK081310 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130003E23 product:nephroblastoma overexpressed gene, full insert sequence.
AK136407 - Mus musculus adult male colon cDNA, RIKEN full-length enriched library, clone:9030006D15 product:NOV protein homolog precursor (NovH) (Nephroblastoma overexpressed gene protein homolog), full insert sequence.
AK155048 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630118I18 product:NOV protein homolog precursor (NovH) (Nephroblastoma overexpressed gene protein homolog), full insert sequence.
BC003774 - Mus musculus nephroblastoma overexpressed gene, mRNA (cDNA clone MGC:5979 IMAGE:3494896), complete cds.
X96585 - M.musculus mRNA for NOV protein.
AK039481 - Mus musculus adult male spinal cord cDNA, RIKEN full-length enriched library, clone:A330049G02 product:nephroblastoma overexpressed gene, full insert sequence.
Y09257 - M.musculus mRNA for NOV protein.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_010930, Nov, NOV_MOUSE, Q64299, Q8CA67, uc007vrn.1, uc007vrn.2, uc007vrn.3
UCSC ID: uc007vrn.3
RefSeq Accession: NM_010930
Protein: Q64299 (aka NOV_MOUSE)
CCDS: CCDS27471.1

-  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.