Cdk20 (cyclin-dependent kinase 20) - Rat Genome Database

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Gene: Cdk20 (cyclin-dependent kinase 20) Rattus norvegicus
Analyze
Symbol: Cdk20
Name: cyclin-dependent kinase 20
RGD ID: 1305219
Description: Predicted to enable protein serine/threonine kinase activity. Predicted to be involved in cell division; phosphorylation; and regulation of cell cycle. Predicted to act upstream of or within several processes, including chordate embryonic development; embryonic organ development; and negative regulation of smoothened signaling pathway. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in alcohol dependence. Orthologous to human CDK20 (cyclin dependent kinase 20); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Ccrk; cell cycle related kinase; cell cycle-related kinase; cell division protein kinase 20; LOC364666; MGC112893
RGD Orthologs
Human
Mouse
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
GRCr817706,863 - 717,828 (-)NCBIGRCr8
mRatBN7.217701,122 - 707,869 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl17701,124 - 707,826 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx17719,783 - 726,487 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0172,262,360 - 2,269,064 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.017717,194 - 723,898 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0171,935,900 - 1,942,867 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl171,936,163 - 1,942,865 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0171,924,304 - 1,931,008 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4176,221,255 - 6,227,959 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1176,221,336 - 6,227,959 (-)NCBI
Celera171,806,819 - 1,813,523 (+)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cilium  (IEA)
cytoplasm  (IEA)
nucleoplasm  (ISO)
nucleus  (IBA)

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Substance dependence low-density whole genome association study in two distinct American populations. Yu Y, etal., Hum Genet. 2008 Jun;123(5):495-506. doi: 10.1007/s00439-008-0501-0. Epub 2008 Apr 26.
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:18508765  


Genomics

Comparative Map Data
Cdk20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr817706,863 - 717,828 (-)NCBIGRCr8
mRatBN7.217701,122 - 707,869 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl17701,124 - 707,826 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx17719,783 - 726,487 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0172,262,360 - 2,269,064 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.017717,194 - 723,898 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0171,935,900 - 1,942,867 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl171,936,163 - 1,942,865 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0171,924,304 - 1,931,008 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4176,221,255 - 6,227,959 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1176,221,336 - 6,227,959 (-)NCBI
Celera171,806,819 - 1,813,523 (+)NCBICelera
Cytogenetic Map17p14NCBI
CDK20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38987,966,441 - 87,974,533 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl987,966,441 - 87,974,753 (-)EnsemblGRCh38hg38GRCh38
GRCh37990,581,356 - 90,589,448 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36989,771,176 - 89,779,487 (-)NCBINCBI36Build 36hg18NCBI36
Celera961,147,072 - 61,155,417 (-)NCBICelera
Cytogenetic Map9q22.1NCBI
HuRef960,404,214 - 60,412,553 (-)NCBIHuRef
CHM1_1990,729,461 - 90,737,804 (-)NCBICHM1_1
T2T-CHM13v2.09100,120,474 - 100,128,570 (-)NCBIT2T-CHM13v2.0
Cdk20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391364,580,133 - 64,587,536 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1364,580,128 - 64,589,587 (+)EnsemblGRCm39 Ensembl
GRCm381364,432,319 - 64,439,722 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1364,432,314 - 64,441,773 (+)EnsemblGRCm38mm10GRCm38
MGSCv371364,533,861 - 64,541,029 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361364,447,324 - 64,454,492 (+)NCBIMGSCv36mm8
Celera1366,096,127 - 66,103,167 (+)NCBICelera
Cytogenetic Map13B3NCBI
cM Map1333.26NCBI
CDK20
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21151,403,533 - 51,440,314 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1951,407,864 - 51,439,504 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0959,114,640 - 59,146,438 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1987,186,151 - 87,216,497 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl987,186,151 - 87,216,537 (+)Ensemblpanpan1.1panPan2
CDK20
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1197,623,126 - 97,662,668 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl197,622,998 - 97,662,662 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha198,085,092 - 98,124,432 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0198,234,542 - 98,273,720 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl198,234,315 - 98,319,825 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1197,861,596 - 97,900,723 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0197,579,491 - 97,618,492 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0198,340,675 - 98,379,772 (+)NCBIUU_Cfam_GSD_1.0
Cdk20
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049449,886,210 - 9,892,384 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936854812,575 - 817,202 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936854810,996 - 817,136 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDK20
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11415,582 - 24,102 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214137,509 - 145,565 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CDK20
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11298,522,596 - 98,530,734 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1298,522,333 - 98,530,817 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603886,845,817 - 86,854,163 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdk20
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248684,241,976 - 4,248,196 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248684,225,779 - 4,248,252 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cdk20
31 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:501
Count of miRNA genes:244
Interacting mature miRNAs:286
Transcripts:ENSRNOT00000024466
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat

Markers in Region
AW558027  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.217701,522 - 701,637 (-)MAPPERmRatBN7.2
Rnor_6.0171,942,352 - 1,942,466NCBIRnor6.0
Rnor_5.0171,930,493 - 1,930,607UniSTSRnor5.0
RGSC_v3.4176,221,656 - 6,221,770UniSTSRGSC3.4
Celera171,813,008 - 1,813,122UniSTS
Cytogenetic Map17p14UniSTS
RH133769  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.217701,335 - 701,519 (-)MAPPERmRatBN7.2
Rnor_6.0171,942,470 - 1,942,653NCBIRnor6.0
Rnor_5.0171,930,611 - 1,930,794UniSTSRnor5.0
RGSC_v3.4176,221,469 - 6,221,652UniSTSRGSC3.4
Celera171,813,126 - 1,813,309UniSTS
RH 3.4 Map1716.0UniSTS
Cytogenetic Map17p14UniSTS


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 12 7 6 4 6 3 68 33 38 11
Low 1 31 50 35 15 35 8 8 6 2 3 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024466   ⟹   ENSRNOP00000024466
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl17701,124 - 707,826 (-)Ensembl
Rnor_6.0 Ensembl171,936,163 - 1,942,865 (+)Ensembl
RefSeq Acc Id: NM_001025752   ⟹   NP_001020923
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr817706,863 - 713,567 (-)NCBI
mRatBN7.217701,122 - 707,826 (-)NCBI
Rnor_6.0171,936,163 - 1,942,867 (+)NCBI
Rnor_5.0171,924,304 - 1,931,008 (+)NCBI
RGSC_v3.4176,221,255 - 6,227,959 (-)RGD
Celera171,806,819 - 1,813,523 (+)RGD
Sequence:
RefSeq Acc Id: XR_005495307
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr817708,823 - 717,828 (-)NCBI
mRatBN7.217703,057 - 707,869 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001020923 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH98838 (Get FASTA)   NCBI Sequence Viewer  
  EDL84441 (Get FASTA)   NCBI Sequence Viewer  
  EDL84442 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024466
  ENSRNOP00000024466.3
  ENSRNOP00055034046
  ENSRNOP00060030100
  ENSRNOP00065036159
GenBank Protein Q4KM34 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001020923   ⟸   NM_001025752
- UniProtKB: Q4KM34 (UniProtKB/Swiss-Prot),   A6KQE7 (UniProtKB/TrEMBL),   A6KQE8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024466   ⟸   ENSRNOT00000024466
Protein Domains
Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4KM34-F1-model_v2 AlphaFold Q4KM34 1-346 view protein structure

Transcriptome

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

Promoters
RGD ID:13700265
Promoter ID:EPDNEW_R10789
Type:multiple initiation site
Name:Cdk20_1
Description:cyclin-dependent kinase 20
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_6.0171,936,151 - 1,936,211EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305219 AgrOrtholog
BioCyc Gene G2FUF-10547 BioCyc
Ensembl Genes ENSRNOG00000017991 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055024324 UniProtKB/Swiss-Prot
  ENSRNOG00060021119 UniProtKB/Swiss-Prot
  ENSRNOG00065025585 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000024466 ENTREZGENE
  ENSRNOT00000024466.5 UniProtKB/Swiss-Prot
  ENSRNOT00055041807 UniProtKB/Swiss-Prot
  ENSRNOT00060036573 UniProtKB/Swiss-Prot
  ENSRNOT00065044076 UniProtKB/Swiss-Prot
Gene3D-CATH Transferase(Phosphotransferase) domain 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7378980 IMAGE-MGC_LOAD
InterPro CDK20-like_STKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  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:364666 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:112893 IMAGE-MGC_LOAD
NCBI Gene 364666 ENTREZGENE
PANTHER CELL DIVISION PROTEIN KINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CYCLIN-DEPENDENT KINASE 20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Pkinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cdk20 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 ENSRNOG00000017991 RatGTEx
  ENSRNOG00055024324 RatGTEx
  ENSRNOG00060021119 RatGTEx
  ENSRNOG00065025585 RatGTEx
SMART S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Protein kinase-like (PK-like) UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
UniProt A6KQE7 ENTREZGENE, UniProtKB/TrEMBL
  A6KQE8 ENTREZGENE, UniProtKB/TrEMBL
  CDK20_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-07-29 Cdk20  cyclin-dependent kinase 20  Ccrk  cell cycle related kinase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Ccrk  cell cycle related kinase  Ccrk_predicted  cell cycle related kinase (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Ccrk_predicted  cell cycle related kinase (predicted)      Symbol and Name status set to approved 70820 APPROVED