Csnk2b (casein kinase 2 beta) - Rat Genome Database

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Gene: Csnk2b (casein kinase 2 beta) Rattus norvegicus
Analyze
Symbol: Csnk2b
Name: casein kinase 2 beta
RGD ID: 619978
Description: Enables ribonucleoprotein complex binding activity. Involved in liver regeneration; postsynaptic modulation of chemical synaptic transmission; and response to testosterone. Located in several cellular components, including Schaffer collateral - CA1 synapse; glutamatergic synapse; and nuclear matrix. Biomarker of myocardial infarction. Orthologous to human CSNK2B (casein kinase 2 beta); PARTICIPATES IN E-cadherin signaling pathway; mitochondrial autophagy pathway; nuclear factor kappa B signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: casein kinase 2, beta polypeptide; casein kinase 2, beta subunit; casein kinase II beta subunit; casein kinase II subunit beta; chimera Csnk2b-Ly6g5b splicing isoform 2050; chimera Csnk2b-Ly6g5b splicing isoform 2275; chimera Csnk2b-Ly6g5b splicing isoform 2531; chimera Csnk2b-Ly6g5b splicing isoform 901; CK II beta; Ck2; Csnk2b splicing isoform 280; Csnk2b splicing isoform 662; Csnk2b-Ly6g5b; phosvitin
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2203,700,363 - 3,705,331 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl203,698,733 - 3,707,133 (+)Ensembl
Rnor_6.0205,108,692 - 5,113,675 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,106,890 - 5,113,112 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,181,951 - 7,186,861 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,764,565 - 3,768,985 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1203,764,954 - 3,769,209 (+)NCBI
Celera204,320,311 - 4,324,731 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Ahmed K, etal., Cell Mol Biol Res 1993;39(5):451-62.
2. Alvarado-Diaz CP, etal., Cell Tissue Res. 2009 Oct;338(1):139-49. doi: 10.1007/s00441-009-0847-1. Epub 2009 Aug 27.
3. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Gesase AP and Kiyama H, J Neurocytol. 2000 Jan;29(1):61-6.
5. Kimura R and Matsuki N, J Physiol. 2008 Jul 1;586(13):3195-206. doi: 10.1113/jphysiol.2008.151894. Epub 2008 May 15.
6. Kramerov AA, etal., Am J Pathol. 2006 May;168(5):1722-36.
7. Kulikova OG and Reikhardt BA, Biochemistry (Mosc). 1998 Dec;63(12):1400-6.
8. Landesman-Bollag E, etal., Mol Cell Biochem 2001 Nov;227(1-2):153-65.
9. Lemeer S, etal., Proteomics. 2015 Jan;15(2-3):356-64. doi: 10.1002/pmic.201400213. Epub 2014 Dec 17.
10. Meggio F, etal., Mol Cell Biochem 2001 Nov;227(1-2):145-51.
11. NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Pancetti F, etal., Biochem Biophys Res Commun. 1996 Jan 5;218(1):35-9.
13. Pancetti F, etal., Biochem Biophys Res Commun. 1999 Jun 24;260(1):17-22.
14. Pipeline to import KEGG annotations from KEGG into RGD
15. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
16. RGD automated data pipeline
17. RGD automated import pipeline for gene-chemical interactions
18. RGD comprehensive gene curation
19. Sarrouilhe D, etal., Biochim Biophys Acta. 1998 Jun 22;1403(2):199-210.
20. Wei H, etal., Biochim Biophys Acta. 2015 Oct;1853(10 Pt B):2784-90. doi: 10.1016/j.bbamcr.2015.03.013. Epub 2015 Apr 1.
21. Xu YJ, etal., J Cell Mol Med. 2004 Jan-Mar;8(1):85-92.
22. Yu S, etal., Mol Cell Biochem 2001 Nov;227(1-2):67-71.
23. Zhang P, etal., J Cell Biochem. 1998 May 1;69(2):211-20.
Additional References at PubMed
PMID:8083223   PMID:8206911   PMID:10094392   PMID:10398585   PMID:11744621   PMID:11984006   PMID:12477932   PMID:12511551   PMID:14645218   PMID:14667819   PMID:15060004   PMID:15297462  
PMID:15537897   PMID:15723517   PMID:15882073   PMID:15897466   PMID:16335525   PMID:17520485   PMID:17553997   PMID:18089804   PMID:18278803   PMID:19064667   PMID:19233263   PMID:19324893  
PMID:19460754   PMID:19542537   PMID:19592636   PMID:20458337   PMID:20493168   PMID:20869595   PMID:21187092   PMID:21282530   PMID:21431367   PMID:21630459   PMID:21988832   PMID:22206666  
PMID:22447044   PMID:23521802   PMID:23553788   PMID:23555304   PMID:25519132   PMID:25931508   PMID:25950943   PMID:26362340   PMID:27276705   PMID:27782092   PMID:27851782   PMID:29476059  
PMID:31904090  


Genomics

Comparative Map Data
Csnk2b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2203,700,363 - 3,705,331 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl203,698,733 - 3,707,133 (+)Ensembl
Rnor_6.0205,108,692 - 5,113,675 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,106,890 - 5,113,112 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,181,951 - 7,186,861 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,764,565 - 3,768,985 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1203,764,954 - 3,769,209 (+)NCBI
Celera204,320,311 - 4,324,731 (-)NCBICelera
Cytogenetic Map20p12NCBI
CSNK2B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl631,665,227 - 31,670,343 (+)EnsemblGRCh38hg38GRCh38
GRCh38631,666,080 - 31,670,067 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37631,633,857 - 31,637,844 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,741,636 - 31,745,822 (+)NCBINCBI36hg18NCBI36
Build 34631,741,635 - 31,745,822NCBI
Celera633,231,878 - 33,236,064 (+)NCBI
Cytogenetic Map6p21.33NCBI
HuRef631,419,882 - 31,424,068 (+)NCBIHuRef
CHM1_1631,635,793 - 31,639,979 (+)NCBICHM1_1
Csnk2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,335,171 - 35,341,029 (-)NCBIGRCm39mm39
GRCm39 Ensembl1735,335,172 - 35,341,029 (-)Ensembl
GRCm381735,116,195 - 35,122,053 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,116,196 - 35,122,053 (-)EnsemblGRCm38mm10GRCm38
MGSCv371735,253,140 - 35,258,392 (-)NCBIGRCm37mm9NCBIm37
MGSCv361734,724,251 - 34,729,503 (-)NCBImm8
Celera1738,213,147 - 38,218,397 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.59NCBI
Csnk2b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955437210,838 - 219,694 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955437210,541 - 215,725 (+)NCBIChiLan1.0ChiLan1.0
CSNK2B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1632,216,283 - 32,221,131 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0631,327,250 - 31,331,250 (+)NCBIMhudiblu_PPA_v0panPan3
CSNK2B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,149,467 - 1,154,417 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl121,149,548 - 1,154,418 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,285,676 - 1,290,594 (+)NCBI
ROS_Cfam_1.0121,294,469 - 1,299,387 (+)NCBI
UMICH_Zoey_3.1121,153,768 - 1,158,617 (+)NCBI
UNSW_CanFamBas_1.0121,221,041 - 1,225,991 (+)NCBI
UU_Cfam_GSD_1.0121,288,118 - 1,293,071 (+)NCBI
Csnk2b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,698,801 - 35,703,748 (+)NCBI
SpeTri2.0NW_0049367271,857,596 - 1,862,551 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CSNK2B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1723,781,194 - 23,787,914 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2727,464,062 - 27,471,599 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CSNK2B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11740,354,520 - 40,359,136 (-)NCBI
ChlSab1.1 Ensembl1740,352,367 - 40,358,401 (-)Ensembl
Vero_WHO_p1.0NW_02366604431,577,195 - 31,581,146 (+)NCBI
Csnk2b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475424,533,134 - 24,538,233 (-)NCBI

Position Markers
D20Yum50  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,702,594 - 3,702,749 (-)MAPPERmRatBN7.2
Rnor_6.0205,111,274 - 5,111,428NCBIRnor6.0
Rnor_5.0207,184,533 - 7,184,687UniSTSRnor5.0
RGSC_v3.4203,766,249 - 3,766,403UniSTSRGSC3.4
Celera204,322,893 - 4,323,047UniSTS
Cytogenetic Map20p12UniSTS
RH129972  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,705,110 - 3,705,300 (-)MAPPERmRatBN7.2
Rnor_6.0205,108,723 - 5,108,912NCBIRnor6.0
Rnor_5.0207,181,982 - 7,182,171UniSTSRnor5.0
RGSC_v3.4203,768,765 - 3,768,954UniSTSRGSC3.4
Celera204,320,342 - 4,320,531UniSTS
Cytogenetic Map20p12UniSTS
RH137048  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,705,115 - 3,705,301 (-)MAPPERmRatBN7.2
Rnor_6.0205,108,722 - 5,108,907NCBIRnor6.0
Rnor_5.0207,181,981 - 7,182,166UniSTSRnor5.0
RGSC_v3.4203,768,770 - 3,768,955UniSTSRGSC3.4
Celera204,320,341 - 4,320,526UniSTS
RH 3.4 Map2052.22UniSTS
Cytogenetic Map20p12UniSTS
MARC_3347-3348:991937077:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,704,062 - 3,705,128 (-)MAPPERmRatBN7.2
Rnor_6.0205,108,895 - 5,109,960NCBIRnor6.0
Rnor_5.0207,182,154 - 7,183,219UniSTSRnor5.0
RGSC_v3.4203,767,717 - 3,768,782UniSTSRGSC3.4
Celera204,320,514 - 4,321,579UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2026463954597031Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2026463954597031Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
737973Pia21Pristane induced arthritis QTL 214.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2036216564606812Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:59
Count of miRNA genes:56
Interacting mature miRNAs:58
Transcripts:ENSRNOT00000001123
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001035238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_031021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC094348 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC078807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX883045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB743000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB790784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV778558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214437 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224491 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HE864425 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HE864426 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HE864431 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HE864432 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HE864433 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HE864434 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000001123   ⟹   ENSRNOP00000001123
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,700,991 - 3,705,344 (+)Ensembl
Rnor_6.0 Ensembl205,108,695 - 5,112,984 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076528   ⟹   ENSRNOP00000068429
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,698,733 - 3,707,133 (+)Ensembl
Rnor_6.0 Ensembl205,108,695 - 5,113,112 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076597   ⟹   ENSRNOP00000068454
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,700,991 - 3,705,327 (+)Ensembl
Rnor_6.0 Ensembl205,109,462 - 5,110,191 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076983   ⟹   ENSRNOP00000068085
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,108,692 - 5,112,872 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092222   ⟹   ENSRNOP00000075275
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,700,991 - 3,705,016 (+)Ensembl
Rnor_6.0 Ensembl205,106,890 - 5,112,258 (-)Ensembl
RefSeq Acc Id: NM_001035238   ⟹   NP_001030315
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,700,911 - 3,705,331 (+)NCBI
Rnor_6.0205,108,692 - 5,113,112 (-)NCBI
Rnor_5.0207,181,951 - 7,186,861 (-)NCBI
RGSC_v3.4203,764,565 - 3,768,985 (+)RGD
Celera204,320,311 - 4,324,731 (-)RGD
Sequence:
RefSeq Acc Id: NM_031021   ⟹   NP_112283
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,701,055 - 3,705,331 (+)NCBI
Rnor_6.0205,108,692 - 5,112,968 (-)NCBI
Rnor_5.0207,181,951 - 7,186,861 (-)NCBI
RGSC_v3.4203,764,565 - 3,768,985 (+)RGD
Celera204,320,311 - 4,324,587 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256081   ⟹   XP_006256143
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,700,363 - 3,705,331 (+)NCBI
Rnor_6.0205,108,692 - 5,113,675 (-)NCBI
Rnor_5.0207,181,951 - 7,186,861 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001030315   ⟸   NM_001035238
- UniProtKB: P67874 (UniProtKB/Swiss-Prot),   Q68G11 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_112283   ⟸   NM_031021
- UniProtKB: P67874 (UniProtKB/Swiss-Prot),   Q68G11 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256143   ⟸   XM_006256081
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000075275   ⟸   ENSRNOT00000092222
RefSeq Acc Id: ENSRNOP00000068085   ⟸   ENSRNOT00000076983
RefSeq Acc Id: ENSRNOP00000001123   ⟸   ENSRNOT00000001123
RefSeq Acc Id: ENSRNOP00000068454   ⟸   ENSRNOT00000076597
RefSeq Acc Id: ENSRNOP00000068429   ⟸   ENSRNOT00000076528

Transcriptome

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

Promoters
RGD ID:13701391
Promoter ID:EPDNEW_R11915
Type:initiation region
Name:Csnk2b_1
Description:casein kinase 2 beta
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_6.0205,112,981 - 5,113,041EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619978 AgrOrtholog
Ensembl Genes ENSRNOG00000000847 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000001123 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000068085 UniProtKB/TrEMBL
  ENSRNOP00000068429 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000068454 UniProtKB/TrEMBL
  ENSRNOP00000075275 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001123 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000076528 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000076597 UniProtKB/TrEMBL
  ENSRNOT00000076983 UniProtKB/TrEMBL
  ENSRNOT00000092222 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1820.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7133064 IMAGE-MGC_LOAD
InterPro Casein_kin_II_reg-sub_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Casein_kinase_II_beta-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Casein_kinase_II_reg-sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:81650 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93390 IMAGE-MGC_LOAD
NCBI Gene 81650 ENTREZGENE
PANTHER PTHR11740 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CK_II_beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Csnk2b PhenoGen
PRINTS CASNKINASEII UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CK2_BETA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CK_II_beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57798 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A096MJD3_RAT UniProtKB/TrEMBL
  A0A096MKB7_RAT UniProtKB/TrEMBL
  A0A0G2KA61_RAT UniProtKB/TrEMBL
  CSK2B_RAT UniProtKB/Swiss-Prot
  N0E631_RAT UniProtKB/TrEMBL
  P67874 ENTREZGENE
  Q68G11 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary P07312 UniProtKB/Swiss-Prot
  P13862 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Csnk2b  casein kinase 2 beta  Csnk2b  casein kinase 2, beta polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-20 Csnk2b  casein kinase 2, beta polypeptide  Csnk2b  casein kinase 2, beta subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Csnk2b  casein kinase 2, beta subunit    casein kinase II beta subunit  Name updated 1299863 APPROVED
2002-08-07 Csnk2b  casein kinase II beta subunit      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease increased expression is detected in carcinogen-induced breast tumors 727632
gene_regulation properties are modulated by Rev protein 727694