Vrk2 (VRK serine/threonine kinase 2) - Rat Genome Database

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Gene: Vrk2 (VRK serine/threonine kinase 2) Rattus norvegicus
Analyze
Symbol: Vrk2
Name: VRK serine/threonine kinase 2
RGD ID: 1311585
Description: Predicted to enable protein domain specific binding activity; protein kinase binding activity; and protein serine/threonine kinase activity. Predicted to be involved in several processes, including DNA damage response; cellular response to oxidative stress; and regulation of signal transduction. Predicted to act upstream of or within protein autophosphorylation. Predicted to be located in endoplasmic reticulum membrane; mitochondrial membrane; and nuclear envelope. Predicted to be part of protein-containing complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human VRK2 (VRK serine/threonine kinase 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; aflatoxin B1; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC360991; serine/threonine-protein kinase VRK2; vaccinia related kinase 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814104,514,815 - 104,635,549 (-)NCBIGRCr8
mRatBN7.214100,313,771 - 100,434,520 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl14100,313,601 - 100,434,527 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14104,646,638 - 104,767,362 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014105,890,724 - 106,011,446 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014102,362,554 - 102,483,276 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014110,739,835 - 110,883,836 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14110,739,226 - 110,883,803 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014110,554,902 - 110,576,584 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.014110,444,503 - 110,501,306 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414107,287,844 - 107,450,960 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.114107,300,490 - 107,470,542 (-)NCBI
Celera1499,260,139 - 99,368,196 (-)NCBICelera
Cytogenetic Map14q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14645249   PMID:16495336   PMID:16704422   PMID:17709393   PMID:18286207   PMID:20679487   PMID:22572157   PMID:31142202  


Genomics

Comparative Map Data
Vrk2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814104,514,815 - 104,635,549 (-)NCBIGRCr8
mRatBN7.214100,313,771 - 100,434,520 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl14100,313,601 - 100,434,527 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14104,646,638 - 104,767,362 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014105,890,724 - 106,011,446 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014102,362,554 - 102,483,276 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014110,739,835 - 110,883,836 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14110,739,226 - 110,883,803 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014110,554,902 - 110,576,584 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.014110,444,503 - 110,501,306 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414107,287,844 - 107,450,960 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.114107,300,490 - 107,470,542 (-)NCBI
Celera1499,260,139 - 99,368,196 (-)NCBICelera
Cytogenetic Map14q22NCBI
VRK2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38257,907,592 - 58,159,920 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl257,907,629 - 58,159,920 (+)EnsemblGRCh38hg38GRCh38
GRCh37258,134,727 - 58,387,055 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36258,127,224 - 58,240,510 (+)NCBINCBI36Build 36hg18NCBI36
Build 34258,185,476 - 58,298,654NCBI
Celera258,116,828 - 58,230,225 (+)NCBICelera
Cytogenetic Map2p16.1NCBI
HuRef258,014,875 - 58,128,335 (+)NCBIHuRef
CHM1_1258,203,888 - 58,317,318 (+)NCBICHM1_1
T2T-CHM13v2.0257,912,292 - 58,164,754 (+)NCBIT2T-CHM13v2.0
Vrk2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391126,421,398 - 26,544,006 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1126,421,322 - 26,543,999 (-)EnsemblGRCm39 Ensembl
GRCm381126,471,398 - 26,594,012 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1126,471,322 - 26,593,999 (-)EnsemblGRCm38mm10GRCm38
MGSCv371126,371,401 - 26,493,920 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361126,503,981 - 26,625,366 (-)NCBIMGSCv36mm8
MGSCv361126,371,404 - 26,493,611 (-)NCBIMGSCv36mm8
Celera1128,995,024 - 28,995,410 (+)NCBICelera
Celera1137,253,803 - 37,372,542 (-)NCBICelera
Cytogenetic Map11A3.3NCBI
cM Map1115.94NCBI
Vrk2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542425,282,007 - 25,399,348 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542425,307,221 - 25,397,900 (-)NCBIChiLan1.0ChiLan1.0
VRK2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21268,197,958 - 68,310,907 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A68,201,910 - 68,314,773 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A58,158,347 - 58,271,245 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A59,166,949 - 59,419,895 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A59,305,233 - 59,419,895 (+)Ensemblpanpan1.1panPan2
VRK2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11058,432,144 - 58,544,189 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1058,431,978 - 58,544,189 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1058,280,905 - 58,497,135 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01059,332,186 - 59,547,978 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1059,435,778 - 59,547,970 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11059,029,154 - 59,244,640 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01059,313,317 - 59,529,195 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01059,606,236 - 59,821,676 (+)NCBIUU_Cfam_GSD_1.0
Vrk2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629224,418,835 - 24,615,182 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364913,958,588 - 4,057,738 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364913,956,171 - 4,057,753 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VRK2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl383,433,313 - 83,536,980 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1383,435,250 - 83,537,022 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2388,020,677 - 88,122,044 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VRK2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11448,803,149 - 48,909,144 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1448,798,499 - 48,906,712 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604562,835,754 - 62,944,601 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vrk2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248333,663,641 - 3,776,404 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248333,663,606 - 3,778,598 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Vrk2
776 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:44
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000068190
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat

Markers in Region
AU048106  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.014110,777,762 - 110,777,959NCBIRnor6.0
Rnor_5.014110,470,932 - 110,471,162UniSTSRnor5.0
RGSC_v3.414107,314,273 - 107,315,081UniSTSRGSC3.4
Celera1499,286,570 - 99,286,749UniSTS
Cytogenetic Map14q22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000068190   ⟹   ENSRNOP00000063285
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl14100,325,271 - 100,434,527 (-)Ensembl
Rnor_6.0 Ensembl14110,751,333 - 110,883,803 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000086299   ⟹   ENSRNOP00000069563
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl14100,313,601 - 100,434,508 (-)Ensembl
Rnor_6.0 Ensembl14110,739,226 - 110,883,784 (-)Ensembl
RefSeq Acc Id: NM_001401405   ⟹   NP_001388334
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814104,514,815 - 104,635,549 (-)NCBI
mRatBN7.214100,313,773 - 100,434,520 (-)NCBI
RefSeq Acc Id: XM_039092235   ⟹   XP_038948163
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814104,514,815 - 104,632,119 (-)NCBI
mRatBN7.214100,313,771 - 100,428,314 (-)NCBI
RefSeq Acc Id: XM_063273410   ⟹   XP_063129480
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814104,514,815 - 104,632,113 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001388334 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948163 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129480 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL98013 (Get FASTA)   NCBI Sequence Viewer  
  EDL98014 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000063285.1
  ENSRNOP00000069563.1
Ensembl Acc Id: ENSRNOP00000063285   ⟸   ENSRNOT00000068190
Ensembl Acc Id: ENSRNOP00000069563   ⟸   ENSRNOT00000086299
RefSeq Acc Id: XP_038948163   ⟸   XM_039092235
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001388334   ⟸   NM_001401405
- UniProtKB: A0A0G2JVP1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129480   ⟸   XM_063273410
- Peptide Label: isoform X1
Protein Domains
Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JVP1-F1-model_v2 AlphaFold A0A0G2JVP1 1-503 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13699537
Promoter ID:EPDNEW_R10052
Type:initiation region
Name:Vrk2_1
Description:vaccinia related kinase 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014110,883,796 - 110,883,856EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311585 AgrOrtholog
BioCyc Gene G2FUF-14722 BioCyc
Ensembl Genes ENSRNOG00000007864 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000068190.2 UniProtKB/TrEMBL
  ENSRNOT00000086299.2 UniProtKB/TrEMBL
Gene3D-CATH Transferase(Phosphotransferase) domain 1 UniProtKB/TrEMBL
InterPro CK1_Ser-Thr_kinase UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/TrEMBL
NCBI Gene 360991 ENTREZGENE
PANTHER CASEIN KINASE-RELATED UniProtKB/TrEMBL
  SERINE/THREONINE-PROTEIN KINASE VRK2 UniProtKB/TrEMBL
Pfam Pkinase UniProtKB/TrEMBL
PhenoGen Vrk2 PhenoGen
PROSITE PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/TrEMBL
RatGTEx ENSRNOG00000007864 RatGTEx
SMART S_TKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
UniProt A0A0G2JVP1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZUF8_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-08-24 Vrk2  VRK serine/threonine kinase 2  Vrk2  vaccinia related kinase 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Vrk2  vaccinia related kinase 2   Vrk2_predicted  vaccinia related kinase 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Vrk2_predicted  vaccinia related kinase 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED