Csnk1d (casein kinase 1, delta) - Rat Genome Database

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Gene: Csnk1d (casein kinase 1, delta) Rattus norvegicus
Analyze
Symbol: Csnk1d
Name: casein kinase 1, delta
RGD ID: 71031
Description: Enables protein serine/threonine kinase activity. Involved in cellular response to nerve growth factor stimulus. Located in centrosome and perinuclear region of cytoplasm. Human ortholog(s) of this gene implicated in advanced sleep phase syndrome 2. Orthologous to human CSNK1D (casein kinase 1 delta); PARTICIPATES IN Hedgehog signaling pathway; p53 signaling pathway; ribosome biogenesis pathway; INTERACTS WITH 2,4-dinitrotoluene; 2-ethoxyethanol; 2-methoxyethanol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: casein kinase 1 delta; casein kinase I; casein kinase I isoform delta; CKI-delta; tau-protein kinase CSNK1D
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
GRCr810106,713,497 - 106,754,953 (-)NCBIGRCr8
mRatBN7.210106,221,992 - 106,256,620 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10106,221,992 - 106,256,614 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10111,329,802 - 111,360,776 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010110,792,841 - 110,823,815 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.010106,146,084 - 106,177,075 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.010110,147,786 - 110,182,413 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10110,148,600 - 110,182,408 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010109,738,952 - 109,769,940 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410110,166,244 - 110,197,233 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110110,177,115 - 110,211,716 (-)NCBI
Celera10104,764,644 - 104,795,629 (-)NCBICelera
Cytogenetic Map10q32.3NCBI
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
1,2-dimethylhydrazine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2-ethoxyethanol  (EXP)
2-hydroxypropanoic acid  (ISO)
2-methoxyethanol  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
caffeine  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
coumarin  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dieldrin  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
folic acid  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
methylmercury chloride  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methylformamide  (ISO)
N-Vinyl-2-pyrrolidone  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP,ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorohexanesulfonic acid  (ISO)
phenobarbital  (EXP)
pyrazoles  (ISO)
pyrimidines  (ISO)
rac-lactic acid  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
tunicamycin  (ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vanadyl sulfate  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. 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.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Molecular cloning, expression, and characterization of a 49-kilodalton casein kinase I isoform from rat testis. Graves PR, etal., J Biol Chem 1993 Mar 25;268(9):6394-401.
6. Phosphorylation by casein kinase I promotes the turnover of the Mdm2 oncoprotein via the SCF(beta-TRCP) ubiquitin ligase. Inuzuka H, etal., Cancer Cell. 2010 Aug 9;18(2):147-59. doi: 10.1016/j.ccr.2010.06.015.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Centrosomal anchoring of the protein kinase CK1delta mediated by attachment to the large, coiled-coil scaffolding protein CG-NAP/AKAP450. Sillibourne JE, etal., J Mol Biol 2002 Sep 27;322(4):785-97.
15. Interaction of casein kinase 1 delta (CK1 delta) with the light chain LC2 of microtubule associated protein 1A (MAP1A). Wolff S, etal., Biochim Biophys Acta. 2005 Sep 10;1745(2):196-206.
16. Casein kinase 1 delta (CK1delta) interacts with the SNARE associated protein snapin. Wolff S, etal., FEBS Lett. 2006 Nov 27;580(27):6477-84. Epub 2006 Nov 7.
17. Casein kinase 1 delta mRNA is upregulated in Alzheimer disease brain. Yasojima K, etal., Brain Res. 2000 May 19;865(1):116-20.
18. 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:7665585   PMID:8648628   PMID:8889548   PMID:10826492   PMID:11165242   PMID:15557340   PMID:16027726   PMID:16618118   PMID:17027228   PMID:17244647   PMID:17562708   PMID:17594292  
PMID:19414593   PMID:20412773   PMID:21399614   PMID:21422228   PMID:21564097   PMID:21718540   PMID:21930935   PMID:22549116   PMID:23861943   PMID:24055157   PMID:24648492   PMID:25245819  
PMID:25468996   PMID:25500533  


Genomics

Comparative Map Data
Csnk1d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr810106,713,497 - 106,754,953 (-)NCBIGRCr8
mRatBN7.210106,221,992 - 106,256,620 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10106,221,992 - 106,256,614 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10111,329,802 - 111,360,776 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010110,792,841 - 110,823,815 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.010106,146,084 - 106,177,075 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.010110,147,786 - 110,182,413 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10110,148,600 - 110,182,408 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010109,738,952 - 109,769,940 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410110,166,244 - 110,197,233 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110110,177,115 - 110,211,716 (-)NCBI
Celera10104,764,644 - 104,795,629 (-)NCBICelera
Cytogenetic Map10q32.3NCBI
CSNK1D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381782,239,019 - 82,273,750 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1782,239,023 - 82,273,700 (-)EnsemblGRCh38hg38GRCh38
GRCh371780,196,895 - 80,231,626 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361777,795,527 - 77,824,862 (-)NCBINCBI36Build 36hg18NCBI36
Build 341777,795,530 - 77,824,862NCBI
Celera1776,796,458 - 76,825,073 (-)NCBICelera
Cytogenetic Map17q25.3NCBI
HuRef1775,600,124 - 75,630,539 (-)NCBIHuRef
CHM1_11780,286,271 - 80,316,893 (-)NCBICHM1_1
T2T-CHM13v2.01783,107,753 - 83,142,487 (-)NCBIT2T-CHM13v2.0
Csnk1d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911120,848,535 - 120,882,180 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11120,849,816 - 120,882,156 (-)EnsemblGRCm39 Ensembl
GRCm3811120,957,709 - 120,991,350 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11120,958,990 - 120,991,330 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711120,823,055 - 120,852,647 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611120,777,831 - 120,807,423 (-)NCBIMGSCv36mm8
Celera11132,698,912 - 132,728,516 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1184.75NCBI
Csnk1d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955506904,660 - 935,330 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955506904,659 - 936,293 (+)NCBIChiLan1.0ChiLan1.0
CSNK1D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21998,778,853 - 98,813,136 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan117103,680,413 - 103,714,803 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01776,648,677 - 76,683,054 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11782,461,764 - 82,494,348 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1782,462,467 - 82,494,348 (-)Ensemblpanpan1.1panPan2
CSNK1D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1983,395 - 110,309 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl973,215 - 110,269 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha9678,798 - 713,246 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.09670,196 - 704,640 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl9670,181 - 704,614 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.19695,250 - 729,697 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.09825,215 - 859,661 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.09900,309 - 934,743 (+)NCBIUU_Cfam_GSD_1.0
Csnk1d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602662,224 - 691,072 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365945,724,406 - 5,743,180 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365945,720,887 - 5,743,206 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CSNK1D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl12768,865 - 796,595 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.112768,856 - 794,495 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.212969,952 - 977,839 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CSNK1D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11674,157,875 - 74,192,142 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1674,160,648 - 74,192,108 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607745,753,881 - 45,787,624 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Csnk1d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480111,032,021 - 11,058,551 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480111,031,102 - 11,074,100 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Csnk1d
134 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:450
Count of miRNA genes:245
Interacting mature miRNAs:313
Transcripts:ENSRNOT00000015178, ENSRNOT00000054936
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1051770177107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1069738412107211142Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1069738412107211142Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1069738412107211142Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070199100107211142Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072224939107211142Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1072224939107211142Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1076246085107211142Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076452683107211142Rat
4889492Pancm2Pancreatic morphology QTL 23.2pancreatic beta cell morphology trait (VT:0005217)ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)1076748906107211142Rat
2303589Bw87Body weight QTL 872body mass (VT:0001259)body weight (CMO:0000012)1081285008107211142Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)1082685200107211142Rat
631538Oia5Oil induced arthritis QTL 5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087055121107211142Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087307617107211142Rat
634320Niddm49Non-insulin dependent diabetes mellitus QTL 494.41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1088539139107211142Rat
12880395Cm109Cardiac mass QTL 1090.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)1090404397107211142Rat
12880396Am13Aortic mass QTL 130.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1090404397107211142Rat
12880398Kidm67Kidney mass QTL 670.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1090404397107211142Rat
12880384Cm107Cardiac mass QTL 1070.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)90404397107211142Rat
12880385Cm108Cardiac mass QTL 1080.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)90404397107211142Rat
1579915Bp280Blood pressure QTL 2800.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1090404397107211142Rat
1300137Bp186Blood pressure QTL 1863.57arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1090627439107057807Rat
724530Bp149Blood pressure QTL 1490.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1090627439107211142Rat
1354641Bvd2Brain ventricular dilatation QTL 26.360.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)1093223816107057807Rat
10450493Bp382Blood pressure QTL 3820.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1094759759107211142Rat
2292436Bp310Blood pressure QTL 310arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1094759759107211142Rat
1578663Bss18Bone structure and strength QTL 183.6femur width (VT:1000666)femoral neck width (CMO:0001695)1096703043107057807Rat
1578672Bmd16Bone mineral density QTL 166.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)1096703043107057807Rat

Markers in Region
RH142791  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.210106,249,241 - 106,249,444 (+)MAPPERmRatBN7.2
Rnor_6.010110,175,037 - 110,175,239NCBIRnor6.0
Rnor_5.010109,762,569 - 109,762,771UniSTSRnor5.0
RGSC_v3.410110,189,862 - 110,190,064UniSTSRGSC3.4
Celera10104,788,261 - 104,788,463UniSTS
Cytogenetic Map10q32.3UniSTS
RH137468  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.210106,247,864 - 106,248,052 (+)MAPPERmRatBN7.2
Rnor_6.010110,173,660 - 110,173,847NCBIRnor6.0
Rnor_5.010109,761,192 - 109,761,379UniSTSRnor5.0
RGSC_v3.410110,188,485 - 110,188,672UniSTSRGSC3.4
Celera10104,786,884 - 104,787,071UniSTS
Cytogenetic Map10q32.3UniSTS
UniSTS:532270  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.210106,226,247 - 106,227,173 (+)MAPPERmRatBN7.2
Rnor_6.010110,152,044 - 110,152,969NCBIRnor6.0
Rnor_5.010109,739,576 - 109,740,501UniSTSRnor5.0
Celera10104,765,268 - 104,766,193UniSTS
Cytogenetic Map10q32.3UniSTS


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 42 57 41 19 41 6 9 74 35 41 11 6
Low 1 2 2 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001414039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_139060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063269817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010055238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010055239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010055240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010055241 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_594964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB063114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC128909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM392381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB615084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV112274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY312461 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000015178   ⟹   ENSRNOP00000015178
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl10106,221,992 - 106,256,593 (-)Ensembl
Rnor_6.0 Ensembl10110,148,600 - 110,182,291 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000054936   ⟹   ENSRNOP00000051819
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl10106,225,632 - 106,256,376 (-)Ensembl
Rnor_6.0 Ensembl10110,151,420 - 110,182,408 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099055   ⟹   ENSRNOP00000081510
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl10106,231,205 - 106,256,614 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106442   ⟹   ENSRNOP00000092631
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl10106,225,616 - 106,256,614 (-)Ensembl
RefSeq Acc Id: NM_001414039   ⟹   NP_001400968
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,723,960 - 106,754,688 (-)NCBI
mRatBN7.210106,225,619 - 106,256,349 (-)NCBI
RefSeq Acc Id: NM_139060   ⟹   NP_620691
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,723,965 - 106,754,953 (-)NCBI
mRatBN7.210106,225,624 - 106,256,614 (-)NCBI
Rnor_6.010110,151,420 - 110,182,408 (-)NCBI
Rnor_5.010109,738,952 - 109,769,940 (-)NCBI
RGSC_v3.410110,166,244 - 110,197,233 (-)RGD
Celera10104,764,644 - 104,795,629 (-)RGD
Sequence:
RefSeq Acc Id: XM_063269817   ⟹   XP_063125887
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,720,601 - 106,754,697 (-)NCBI
RefSeq Acc Id: XR_010055238
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,719,912 - 106,754,697 (-)NCBI
RefSeq Acc Id: XR_010055239
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,720,333 - 106,754,697 (-)NCBI
RefSeq Acc Id: XR_010055240
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,713,497 - 106,754,697 (-)NCBI
RefSeq Acc Id: XR_010055241
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,715,660 - 106,754,697 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_620691   ⟸   NM_139060
- Peptide Label: isoform 1
- UniProtKB: Q06486 (UniProtKB/Swiss-Prot),   A6HLL8 (UniProtKB/TrEMBL),   A0A8I5ZSZ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000051819   ⟸   ENSRNOT00000054936
RefSeq Acc Id: ENSRNOP00000015178   ⟸   ENSRNOT00000015178
RefSeq Acc Id: ENSRNOP00000081510   ⟸   ENSRNOT00000099055
RefSeq Acc Id: ENSRNOP00000092631   ⟸   ENSRNOT00000106442
RefSeq Acc Id: NP_001400968   ⟸   NM_001414039
- Peptide Label: isoform 2
- UniProtKB: A0A8L2UMH1 (UniProtKB/TrEMBL),   A6HLL9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063125887   ⟸   XM_063269817
- Peptide Label: isoform X1
- UniProtKB: A6HLL2 (UniProtKB/TrEMBL)
Protein Domains
Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q06486-F1-model_v2 AlphaFold Q06486 1-415 view protein structure

Transcriptome

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

Promoters
RGD ID:13697983
Promoter ID:EPDNEW_R8507
Type:initiation region
Name:Csnk1d_2
Description:casein kinase 1, delta
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R8508  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.010110,182,143 - 110,182,203EPDNEW
RGD ID:13697984
Promoter ID:EPDNEW_R8508
Type:multiple initiation site
Name:Csnk1d_1
Description:casein kinase 1, delta
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R8507  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.010110,182,408 - 110,182,468EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:71031 AgrOrtholog
BioCyc Gene G2FUF-22376 BioCyc
Ensembl Genes ENSRNOG00000036676 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055032733 UniProtKB/Swiss-Prot
  ENSRNOG00060009315 UniProtKB/Swiss-Prot
  ENSRNOG00065004851 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015178.8 UniProtKB/Swiss-Prot
  ENSRNOT00000054936 ENTREZGENE
  ENSRNOT00000054936.4 UniProtKB/TrEMBL
  ENSRNOT00000099055.1 UniProtKB/TrEMBL
  ENSRNOT00000106442 ENTREZGENE
  ENSRNOT00000106442.1 UniProtKB/TrEMBL
  ENSRNOT00055056589 UniProtKB/Swiss-Prot
  ENSRNOT00060015745 UniProtKB/Swiss-Prot
  ENSRNOT00065007050 UniProtKB/Swiss-Prot
Gene3D-CATH Transferase(Phosphotransferase) domain 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64462 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 64462 ENTREZGENE
PANTHER CASEIN KINASE I ISOFORM DELTA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CASEIN KINASE-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Pkinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Csnk1d PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000036676 RatGTEx
  ENSRNOG00055032733 RatGTEx
  ENSRNOG00060009315 RatGTEx
  ENSRNOG00065004851 RatGTEx
SMART S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZSZ2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AHE0_RAT UniProtKB/TrEMBL
  A0A8L2UMH1 ENTREZGENE, UniProtKB/TrEMBL
  A6HLL2 ENTREZGENE, UniProtKB/TrEMBL
  A6HLL4_RAT UniProtKB/TrEMBL
  A6HLL5_RAT UniProtKB/TrEMBL
  A6HLL6_RAT UniProtKB/TrEMBL
  A6HLL7_RAT UniProtKB/TrEMBL
  A6HLL8 ENTREZGENE, UniProtKB/TrEMBL
  A6HLL9 ENTREZGENE, UniProtKB/TrEMBL
  KC1D_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q99KK4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-07-09 Csnk1d  casein kinase 1, delta      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the centrosome of interphase cells and to the mitotic spindle 727437