Csnk1e (casein kinase 1, epsilon) - Rat Genome Database

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Gene: Csnk1e (casein kinase 1, epsilon) Rattus norvegicus
Analyze
Symbol: Csnk1e
Name: casein kinase 1, epsilon
RGD ID: 62045
Description: Enables protein serine/threonine kinase activity. Involved in several processes, including cellular response to nerve growth factor stimulus; circadian behavior; and positive regulation of amyloid-beta formation. Located in several cellular components, including growth cone; neuronal cell body; and nucleus. Human ortholog(s) of this gene implicated in invasive ductal carcinoma. Orthologous to several human genes including CSNK1E (casein kinase 1 epsilon); PARTICIPATES IN Hedgehog signaling pathway; p53 signaling pathway; ribosome biogenesis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 4-amino-2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: casein kinase 1 epsilon; casein kinase I; casein kinase I isoform epsilon
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27110,983,322 - 111,006,926 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7110,983,318 - 111,006,794 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7112,733,871 - 112,752,233 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.07114,957,407 - 114,975,770 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.07114,926,771 - 114,945,137 (-)NCBIRnor_WKY
Rnor_6.07120,651,976 - 120,675,559 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7120,651,881 - 120,672,359 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07120,644,806 - 120,665,192 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47117,402,718 - 117,420,764 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17117,436,947 - 117,454,994 (-)NCBI
Celera7107,318,733 - 107,336,768 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. An inhibitor of casein kinase I epsilon induces phase delays in circadian rhythms under free-running and entrained conditions. Badura L, etal., J Pharmacol Exp Ther. 2007 Aug;322(2):730-8. Epub 2007 May 14.
2. Neurite outgrowth of mature retinal ganglion cells and PC12 cells requires activity of CK1delta and CK1epsilon. Bischof J, etal., PLoS One. 2011;6(6):e20857. doi: 10.1371/journal.pone.0020857. Epub 2011 Jun 16.
3. Wnt-5a induces Dishevelled phosphorylation and dopaminergic differentiation via a CK1-dependent mechanism. Bryja V, etal., J Cell Sci. 2007 Feb 15;120(Pt 4):586-95. Epub 2007 Jan 23.
4. Regulation of Alzheimer's disease amyloid-beta formation by casein kinase I. Flajolet M, etal., Proc Natl Acad Sci U S A. 2007 Mar 6;104(10):4159-64. Epub 2007 Feb 27.
5. Somatic mutations and altered expression of the candidate tumor suppressors CSNK1 epsilon, DLG1, and EDD/hHYD in mammary ductal carcinoma. Fuja TJ, etal., Cancer Res. 2004 Feb 1;64(3):942-51.
6. 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.
7. A new molecular link between the fibrillar and granulovacuolar lesions of Alzheimer's disease. Ghoshal N, etal., Am J Pathol. 1999 Oct;155(4):1163-72.
8. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
12. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
13. GOA pipeline RGD automated data pipeline
14. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
16. Cloning and characterization of rat casein kinase 1epsilon. Takano A, etal., FEBS Lett 2000 Jul 14;477(1-2):106-12.
17. CK1delta and CK1epsilon are components of human 40S subunit precursors required for cytoplasmic 40S maturation. Zemp I, etal., J Cell Sci. 2014 Mar 15;127(Pt 6):1242-53. doi: 10.1242/jcs.138719. Epub 2014 Jan 14.
Additional References at PubMed
PMID:12270714   PMID:12556519   PMID:14701732   PMID:14722104   PMID:14966280   PMID:15917222   PMID:17027228   PMID:17606995   PMID:19414593   PMID:21564097   PMID:21709260   PMID:21930935  
PMID:22549116   PMID:22681889   PMID:23109420   PMID:25245819   PMID:25500533  


Genomics

Comparative Map Data
Csnk1e
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27110,983,322 - 111,006,926 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7110,983,318 - 111,006,794 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7112,733,871 - 112,752,233 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.07114,957,407 - 114,975,770 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.07114,926,771 - 114,945,137 (-)NCBIRnor_WKY
Rnor_6.07120,651,976 - 120,675,559 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7120,651,881 - 120,672,359 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07120,644,806 - 120,665,192 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47117,402,718 - 117,420,764 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17117,436,947 - 117,454,994 (-)NCBI
Celera7107,318,733 - 107,336,768 (-)NCBICelera
Cytogenetic Map7q34NCBI
CSNK1E
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382238,290,691 - 38,318,084 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2238,290,691 - 38,318,084 (-)EnsemblGRCh38hg38GRCh38
GRCh372238,686,697 - 38,714,089 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362237,016,643 - 37,044,035 (-)NCBINCBI36Build 36hg18NCBI36
Build 342237,011,197 - 37,037,913NCBI
Celera2222,491,424 - 22,518,819 (-)NCBICelera
Cytogenetic Map22q13.1NCBI
HuRef2221,653,091 - 21,680,820 (-)NCBIHuRef
CHM1_12238,645,663 - 38,672,968 (-)NCBICHM1_1
T2T-CHM13v2.02238,754,994 - 38,782,389 (-)NCBIT2T-CHM13v2.0
Csnk1e
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391579,302,052 - 79,339,779 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1579,302,056 - 79,339,767 (-)EnsemblGRCm39 Ensembl
GRCm381579,417,852 - 79,455,579 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1579,417,856 - 79,455,566 (-)EnsemblGRCm38mm10GRCm38
MGSCv371579,248,282 - 79,272,487 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361579,245,111 - 79,269,262 (-)NCBIMGSCv36mm8
Celera1581,541,134 - 81,565,319 (-)NCBICelera
Cytogenetic Map15E1NCBI
Csnk1e
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541324,560,900 - 24,591,669 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541324,560,889 - 24,591,669 (-)NCBIChiLan1.0ChiLan1.0
CSNK1E
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12237,027,094 - 37,140,249 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2237,027,094 - 37,072,942 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02219,202,599 - 19,229,344 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CSNK1E
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11026,386,646 - 26,412,429 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1026,393,033 - 26,411,624 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1026,334,633 - 26,368,458 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01027,170,481 - 27,203,064 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1027,180,836 - 27,265,335 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11026,891,565 - 26,924,098 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01027,202,855 - 27,235,392 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01027,379,859 - 27,412,401 (+)NCBIUU_Cfam_GSD_1.0
LOC100523244
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl59,594,934 - 9,620,476 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.159,594,461 - 9,620,483 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.256,877,173 - 6,902,925 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103223312
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11920,992,927 - 21,025,866 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1920,998,009 - 21,022,576 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666045104,722,716 - 104,775,265 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Position Markers
RH129776  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27110,989,098 - 110,989,251 (+)MAPPERmRatBN7.2
Rnor_6.07120,657,750 - 120,657,902NCBIRnor6.0
Rnor_5.07120,650,580 - 120,650,732UniSTSRnor5.0
RGSC_v3.47117,406,389 - 117,406,541UniSTSRGSC3.4
Celera7107,322,404 - 107,322,556UniSTS
RH 3.4 Map7848.0UniSTS
Cytogenetic Map7q34UniSTS
RH137940  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27110,984,187 - 110,984,348 (+)MAPPERmRatBN7.2
Rnor_6.07120,652,840 - 120,653,000NCBIRnor6.0
Rnor_5.07120,645,670 - 120,645,830UniSTSRnor5.0
RGSC_v3.47117,401,479 - 117,401,639UniSTSRGSC3.4
Celera7107,317,494 - 107,317,654UniSTS
RH 3.4 Map7848.0UniSTS
Cytogenetic Map7q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)768938720113886318Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)768938720113886318Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)768938720113886318Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)769736356112729554Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)780221299112308525Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7103146217116738842Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:124
Count of miRNA genes:109
Interacting mature miRNAs:115
Transcripts:ENSRNOT00000018126
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 2 35 25 16 19 16 1 2 74 28 33 11 1
Low 1 8 32 25 25 7 9 7 8 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000018126   ⟹   ENSRNOP00000018126
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,984,045 - 111,006,550 (-)Ensembl
Rnor_6.0 Ensembl7120,652,697 - 120,672,350 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087800   ⟹   ENSRNOP00000073559
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,989,201 - 111,006,550 (-)Ensembl
Rnor_6.0 Ensembl7120,657,852 - 120,672,350 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000088424   ⟹   ENSRNOP00000074993
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,983,318 - 111,006,550 (-)Ensembl
Rnor_6.0 Ensembl7120,651,881 - 120,672,359 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096240   ⟹   ENSRNOP00000084410
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,985,428 - 111,006,550 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105387   ⟹   ENSRNOP00000078173
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,989,512 - 111,006,794 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000119470   ⟹   ENSRNOP00000084112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,985,038 - 111,006,550 (-)Ensembl
RefSeq Acc Id: NM_031617   ⟹   NP_113805
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,985,428 - 111,003,679 (-)NCBI
Rnor_6.07120,654,079 - 120,672,350 (-)NCBI
Rnor_5.07120,644,806 - 120,665,192 (-)NCBI
RGSC_v3.47117,402,718 - 117,420,764 (-)RGD
Celera7107,318,733 - 107,336,768 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242038   ⟹   XP_006242100
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,983,322 - 111,006,924 (-)NCBI
Rnor_6.07120,651,976 - 120,675,559 (-)NCBI
Rnor_5.07120,644,806 - 120,665,192 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079799   ⟹   XP_038935727
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,983,322 - 111,006,925 (-)NCBI
RefSeq Acc Id: XM_039079800   ⟹   XP_038935728
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,983,322 - 111,006,925 (-)NCBI
RefSeq Acc Id: XM_039079801   ⟹   XP_038935729
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,983,322 - 111,005,999 (-)NCBI
RefSeq Acc Id: XM_039079802   ⟹   XP_038935730
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,983,322 - 111,006,646 (-)NCBI
RefSeq Acc Id: XM_039079803   ⟹   XP_038935731
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,983,322 - 111,006,924 (-)NCBI
RefSeq Acc Id: XM_039079804   ⟹   XP_038935732
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,983,322 - 110,997,457 (-)NCBI
RefSeq Acc Id: XM_039079805   ⟹   XP_038935733
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,987,928 - 111,006,926 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_113805   ⟸   NM_031617
- UniProtKB: Q9JJ76 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242100   ⟸   XM_006242038
- Peptide Label: isoform X2
- UniProtKB: Q9JJ76 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018126   ⟸   ENSRNOT00000018126
RefSeq Acc Id: ENSRNOP00000073559   ⟸   ENSRNOT00000087800
RefSeq Acc Id: ENSRNOP00000074993   ⟸   ENSRNOT00000088424
RefSeq Acc Id: XP_038935728   ⟸   XM_039079800
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038935727   ⟸   XM_039079799
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038935731   ⟸   XM_039079803
- Peptide Label: isoform X2
- UniProtKB: Q9JJ76 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935730   ⟸   XM_039079802
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038935729   ⟸   XM_039079801
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038935732   ⟸   XM_039079804
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038935733   ⟸   XM_039079805
- Peptide Label: isoform X4
- UniProtKB: Q9JJ75 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000084112   ⟸   ENSRNOT00000119470
RefSeq Acc Id: ENSRNOP00000084410   ⟸   ENSRNOT00000096240
RefSeq Acc Id: ENSRNOP00000078173   ⟸   ENSRNOT00000105387
Protein Domains
Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q99PS2-F1-model_v2 AlphaFold Q99PS2 1-506 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
BUF/N (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/Stm (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
GK/FarMcwi (2019)
Visual CSV TAB Printer
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
LEW/Crl (2019)
Visual CSV TAB Printer
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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/NRrrcMcwi (2019)
Visual CSV TAB Printer
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
MR/N (2020)
Visual CSV TAB Printer
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
MWF/Hsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
SR/JrHsd (2020)
Visual CSV TAB Printer
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
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
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
WAG/RijCrl (2020)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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/NCrl (2019)
Visual CSV TAB Printer
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
WN/N (2020)
Visual CSV TAB Printer
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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 120663663 120663664 A C snv BXH2/CubMcwi (2020), SR/JrHsd (2020), LEXF4/Stm (2020), BN-Lx/CubMcwi (2019), SS/JrHsdMcwi (2019), F344/NCrl (2019), F344/Stm (2019)
7 120663667 120663668 T C snv F344/Stm (2019), F344/NCrl (2019), BN-Lx/CubMcwi (2019)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 117403624 117403625 C A snv HCR/2Mco (UMich)
7 117412077 117412078 A C snv HCR/2Mco (UMich), LCR/2Mco (UMich)
7 117412081 117412082 T C snv HCR/2Mco (UMich), LCR/2Mco (UMich)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:62045 AgrOrtholog
BioCyc Gene G2FUF-32762 BioCyc
Ensembl Genes ENSRNOG00000013076 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000018126.2 UniProtKB/TrEMBL
  ENSRNOP00000073559 ENTREZGENE
  ENSRNOP00000073559.1 UniProtKB/TrEMBL
  ENSRNOP00000074993 ENTREZGENE
  ENSRNOP00000074993.1 UniProtKB/TrEMBL
  ENSRNOP00000078173.1 UniProtKB/TrEMBL
  ENSRNOP00000084112 ENTREZGENE
  ENSRNOP00000084112.1 UniProtKB/TrEMBL
  ENSRNOP00000084410 ENTREZGENE
  ENSRNOP00000084410.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018126.4 UniProtKB/TrEMBL
  ENSRNOT00000087800 ENTREZGENE
  ENSRNOT00000087800.2 UniProtKB/TrEMBL
  ENSRNOT00000088424 ENTREZGENE
  ENSRNOT00000088424.2 UniProtKB/TrEMBL
  ENSRNOT00000096240 ENTREZGENE
  ENSRNOT00000096240.1 UniProtKB/TrEMBL
  ENSRNOT00000105387.1 UniProtKB/TrEMBL
  ENSRNOT00000119470 ENTREZGENE
  ENSRNOT00000119470.1 UniProtKB/TrEMBL
InterPro Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  Ser/Thr_prot_kinase_AS UniProtKB/TrEMBL
KEGG Report rno:58822 UniProtKB/TrEMBL
NCBI Gene 58822 ENTREZGENE
Pfam Pkinase UniProtKB/TrEMBL
PhenoGen Csnk1e PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/TrEMBL
SMART S_TKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
UniProt A0A8I5Y728_RAT UniProtKB/TrEMBL
  A0A8I5ZYG3_RAT UniProtKB/TrEMBL
  A0A8I5ZZ88_RAT UniProtKB/TrEMBL
  Q99PS2_RAT UniProtKB/TrEMBL
  Q9JJ75 ENTREZGENE, UniProtKB/TrEMBL
  Q9JJ76 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Csnk1e  casein kinase 1, epsilon      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression predominantly expressed in the suprachiasmatic nucleus of the brain 631233