Mouse Gene Vrk2 (ENSMUST00000078362.12) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus vaccinia related kinase 2 (Vrk2), transcript variant 1, mRNA. (from RefSeq NM_027260)
Gencode Transcript: ENSMUST00000078362.12
Gencode Gene: ENSMUSG00000064090.14
Transcript (Including UTRs)
   Position: mm10 chr11:26,471,404-26,593,920 Size: 122,517 Total Exon Count: 13 Strand: -
Coding Region
   Position: mm10 chr11:26,471,445-26,591,722 Size: 120,278 Coding Exon Count: 12 

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 (chr11:26,471,404-26,593,920)mRNA (may differ from genome)Protein (503 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: VRK2_MOUSE
DESCRIPTION: RecName: Full=Serine/threonine-protein kinase VRK2; EC=2.7.11.1; AltName: Full=Vaccinia-related kinase 2;
FUNCTION: Serine/threonine kinase that regulates several signal transduction pathways. Isoform 1 modulates the stress response to hypoxia and cytokines, such as interleukin-1 beta (IL1B) and this is dependent on its interaction with MAPK8IP1, which assembles mitogen-activated protein kinase (MAPK) complexes. Inhibition of signal transmission mediated by the assembly of MAPK8IP1-MAPK complexes reduces JNK phosphorylation and JUN-dependent transcription. Phosphorylates histone H3. Phosphorylates 'Thr-18' of p53/TP53, and thereby increases its stability and activity. Phosphorylates BANF1 and disrupts its ability to bind DNA and reduces its binding to LEM domain-containing proteins. Downregulates the transactivation of transcription induced by ERBB2, HRAS, BRAF, and MEK1. Blocks the phosphorylation of ERK in response to ERBB2 and HRAS. May also phosphorylate MAPK8IP1. Can also phosphorylate the following substrates that are commonly used to establish in vitro kinase activity: casein, MBP and histone H2B, but it is not sure that this is physiologically relevant (By similarity).
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
SUBUNIT: Interacts with MAP3K7, MAP2K7, MAP2K1, KSR1, RAN and MAPK8IP1 (By similarity).
SUBCELLULAR LOCATION: Cytoplasm. Endoplasmic reticulum membrane; Single-pass type IV membrane protein (Potential). Mitochondrion membrane; Single-pass type IV membrane protein (Potential).
TISSUE SPECIFICITY: Expressed in liver, kidney and muscle. Weakly expressed in thymus, bone marrow and spleen.
DEVELOPMENTAL STAGE: Weakly expressed in embryo compared to VRK1 and VRK3. Expressed from E10.5 to E14 in developing liver and then decreases. It increases again from E17.5 and remains thereafter. Highly expressed in hematopoietic embryonic tissues from E10.5 to E14.5. Weakly expressed in the yolk-sac.
PTM: Autophosphorylated.
SIMILARITY: Belongs to the protein kinase superfamily. CK1 Ser/Thr protein kinase family. VRK subfamily.
SIMILARITY: Contains 1 protein kinase domain.

-  Primer design for this transcript
 

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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 -157.90336-0.470 Picture PostScript Text
3' UTR -2.2041-0.054 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
IPR011009 - Kinase-like_dom
IPR000719 - Prot_kinase_cat_dom
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF00069 - Protein kinase domain
PF07714 - Protein tyrosine kinase

SCOP Domains:
56112 - Protein kinase-like (PK-like)

ModBase Predicted Comparative 3D Structure on Q8BN21
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-  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
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
 RGDEnsembl   
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004672 protein kinase activity
GO:0004674 protein serine/threonine kinase activity
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity
GO:0019901 protein kinase binding
GO:0019904 protein domain specific binding

Biological Process:
GO:0006468 protein phosphorylation
GO:0008360 regulation of cell shape
GO:0016310 phosphorylation
GO:0018105 peptidyl-serine phosphorylation
GO:0034599 cellular response to oxidative stress
GO:0043408 regulation of MAPK cascade
GO:0046777 protein autophosphorylation
GO:2000659 regulation of interleukin-1-mediated signaling pathway

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031966 mitochondrial membrane
GO:0032991 macromolecular complex


-  Descriptions from all associated GenBank mRNAs
  BC013520 - Mus musculus vaccinia related kinase 2, mRNA (cDNA clone MGC:19195 IMAGE:4236402), complete cds.
AK154485 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630038O09 product:vaccinia related kinase 2, full insert sequence.
AK012664 - Mus musculus 10, 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2810003O05 product:hypothetical Eukaryotic protein kinase containing protein, full insert sequence.
AF513620 - Mus musculus vaccinia virus BIR kinase related kinase 2 mRNA, complete cds.
AK186520 - Mus musculus cDNA, clone:Y0G0137K05, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020338, based on BLAT search.
AK053297 - Mus musculus 0 day neonate eyeball cDNA, RIKEN full-length enriched library, clone:E130008E14 product:RIKEN cDNA 2810003O05 gene, full insert sequence.
AK089825 - Mus musculus activated spleen cDNA, RIKEN full-length enriched library, clone:F830029G04 product:vaccinia related kinase 2, full insert sequence.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q8BN21 (Reactome details) participates in the following event(s):

R-MMU-2995389 ANKLE2 binds VRK1 or VRK2
R-MMU-2995383 Initiation of Nuclear Envelope Reformation
R-MMU-2995410 Nuclear Envelope Reassembly
R-MMU-68882 Mitotic Anaphase
R-MMU-2555396 Mitotic Metaphase and Anaphase
R-MMU-68886 M Phase
R-MMU-69278 Cell Cycle (Mitotic)
R-MMU-1640170 Cell Cycle

-  Other Names for This Gene
  Alternate Gene Symbols: NM_027260, Q3U415, Q5F1Z5, Q5SP88, Q8BN21, Q8BPU8, Q8CJ46, Q91WS1, Q9CZF9, uc007igf.1, uc007igf.2, uc007igf.3, uc007igf.4, VRK2_MOUSE
UCSC ID: uc007igf.4
RefSeq Accession: NM_027260
Protein: Q8BN21 (aka VRK2_MOUSE)
CCDS: CCDS24486.1

-  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.