Mouse Gene Jam2 (ENSMUST00000114195.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus junction adhesion molecule 2 (Jam2), mRNA. (from RefSeq NM_023844)
Gencode Transcript: ENSMUST00000114195.7
Gencode Gene: ENSMUSG00000053062.16
Transcript (Including UTRs)
   Position: mm10 chr16:84,774,123-84,825,928 Size: 51,806 Total Exon Count: 10 Strand: +
Coding Region
   Position: mm10 chr16:84,774,487-84,822,819 Size: 48,333 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:84,774,123-84,825,928)mRNA (may differ from genome)Protein (298 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: JAM2_MOUSE
DESCRIPTION: RecName: Full=Junctional adhesion molecule B; Short=JAM-B; AltName: Full=Junctional adhesion molecule 2; Short=JAM-2; AltName: Full=Vascular endothelial junction-associated molecule; Short=VE-JAM; AltName: CD_antigen=CD322; Flags: Precursor;
FUNCTION: May play a role in the processes of lymphocyte homing to secondary lymphoid organs (By similarity).
SUBUNIT: Interacts with JAM3 (By similarity).
SUBCELLULAR LOCATION: Cell junction, tight junction. Cell membrane; Single-pass type I membrane protein. Note=Localized at tight junctions of both epithelial and endothelial cells.
SIMILARITY: Belongs to the immunoglobulin superfamily.
SIMILARITY: Contains 1 Ig-like C2-type (immunoglobulin-like) domain.
SIMILARITY: Contains 1 Ig-like V-type (immunoglobulin-like) 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           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -149.40364-0.410 Picture PostScript Text
3' UTR -827.603109-0.266 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
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub
IPR003598 - Ig_sub2
IPR013106 - Ig_V-set

Pfam Domains:
PF00047 - Immunoglobulin domain
PF07679 - Immunoglobulin I-set domain
PF07686 - Immunoglobulin V-set domain
PF13895 - Immunoglobulin domain
PF13927 - Immunoglobulin domain

SCOP Domains:
48726 - Immunoglobulin

ModBase Predicted Comparative 3D Structure on Q9JI59
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:0046982 protein heterodimerization activity

Biological Process:
GO:0007162 negative regulation of cell adhesion

Cellular Component:
GO:0005886 plasma membrane
GO:0005923 bicellular tight junction
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030054 cell junction


-  Descriptions from all associated GenBank mRNAs
  BC028778 - Mus musculus junction adhesion molecule 2, mRNA (cDNA clone MGC:41518 IMAGE:1195543), complete cds.
AJ291757 - Mus musculus mRNA for junctional adhesion molecule-3, (JAM-3 gene).
AK010826 - Mus musculus ES cells cDNA, RIKEN full-length enriched library, clone:2410167M24 product:junction cell adhesion molecule 2, full insert sequence.
AK013914 - Mus musculus 13 days embryo head cDNA, RIKEN full-length enriched library, clone:3100002C20 product:junction cell adhesion molecule 2, full insert sequence.
AK010616 - Mus musculus ES cells cDNA, RIKEN full-length enriched library, clone:2410030G21 product:junction cell adhesion molecule 2, full insert sequence.
AK045095 - Mus musculus 9.5 days embryo parthenogenote cDNA, RIKEN full-length enriched library, clone:B130032E13 product:junction cell adhesion molecule 2, full insert sequence.
AK078128 - Mus musculus adult male medulla oblongata cDNA, RIKEN full-length enriched library, clone:6330541C23 product:junction cell adhesion molecule 2, full insert sequence.
AF255911 - Mus musculus vascular endothelial junction-associated molecule mRNA, complete cds.
AK028757 - Mus musculus 10 days neonate skin cDNA, RIKEN full-length enriched library, clone:4732454B13 product:junction cell adhesion molecule 2, full insert sequence.
AK153636 - Mus musculus 3 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A630028I07 product:junction adhesion molecule 2, full insert sequence.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu04514 - Cell adhesion molecules (CAMs)
mmu04530 - Tight junction
mmu04670 - Leukocyte transendothelial migration

Reactome (by CSHL, EBI, and GO)

Protein Q9JI59 (Reactome details) participates in the following event(s):

R-MMU-202709 JAM2 dimerises
R-MMU-202721 JAM2 binds JAM3
R-MMU-202706 Integrin alpha4beta1 binds JAM2:JAM3
R-MMU-202733 Cell surface interactions at the vascular wall
R-MMU-216083 Integrin cell surface interactions
R-MMU-109582 Hemostasis
R-MMU-1474244 Extracellular matrix organization

-  Other Names for This Gene
  Alternate Gene Symbols: A6X955, JAM2_MOUSE, NM_023844, Q8C5K9, Q8CE95, Q9JI59, uc007ztg.1, uc007ztg.2, uc007ztg.3, uc007ztg.4, Vejam
UCSC ID: uc007ztg.4
RefSeq Accession: NM_023844
Protein: Q9JI59 (aka JAM2_MOUSE)
CCDS: CCDS37381.1

-  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.