Cdkn2d (cyclin dependent kinase inhibitor 2D) - Rat Genome Database

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Pathways
Gene: Cdkn2d (cyclin dependent kinase inhibitor 2D) Rattus norvegicus
Analyze
Symbol: Cdkn2d
Name: cyclin dependent kinase inhibitor 2D
RGD ID: 1593190
Description: Predicted to enable cyclin-dependent protein serine/threonine kinase inhibitor activity and protein kinase binding activity. Predicted to be involved in several processes, including autophagic cell death; negative regulation of G1/S transition of mitotic cell cycle; and negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage. Predicted to act upstream of or within negative regulation of cell cycle G1/S phase transition and sensory perception of sound. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of cyclin D2-CDK4 complex. Predicted to be active in nucleus. Orthologous to human CDKN2D (cyclin dependent kinase inhibitor 2D); PARTICIPATES IN G1/S transition pathway; cell cycle pathway, mitotic; INTERACTS WITH 1,2-dimethylhydrazine; 1,3-dinitrobenzene; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: cyclin-dependent kinase 4 inhibitor D; MGC109660; MGC73010; similar to cyclin-dependent kinase inhibitor 2D
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8828,108,036 - 28,110,809 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl828,108,044 - 28,110,809 (-)EnsemblGRCr8
mRatBN7.2819,831,874 - 19,834,640 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl819,831,866 - 19,834,674 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx823,851,704 - 23,854,497 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0822,149,553 - 22,152,346 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0820,061,563 - 20,064,328 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Celera821,223,465 - 21,226,230 (-)NCBICelera
Cytogenetic Map8q13NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-alpha-phellandrene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (EXP)
1,3-dinitrobenzene  (EXP)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3'-diindolylmethane  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
5-aza-2'-deoxycytidine  (ISO)
all-trans-retinoic acid  (ISO)
alpha-phellandrene  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
avobenzone  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calciol  (ISO)
calcitriol  (ISO)
calycosin  (ISO)
CGP 52608  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cumene  (ISO)
curcumin  (EXP)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cypermethrin  (EXP)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
ethylparaben  (ISO)
formaldehyde  (ISO)
hydrogen peroxide  (ISO)
indometacin  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
lead(0)  (ISO)
levonorgestrel  (ISO)
Licochalcone B  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
methyl methanesulfonate  (ISO)
methylseleninic acid  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monobenzyl phthalate  (ISO)
monoethyl phthalate  (ISO)
monosodium L-glutamate  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
NCX-4040  (ISO)
nickel sulfate  (ISO)
okadaic acid  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
pyrazinecarboxamide  (EXP)
rac-lactic acid  (ISO)
reactive oxygen species  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
testosterone  (ISO)
testosterone undecanoate  (ISO)
tetrachloromethane  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
trichloroethene  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
trovafloxacin  (ISO)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vorinostat  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
2. GOA pipeline RGD automated data pipeline
Additional References at PubMed
PMID:12477932   PMID:26722409  


Genomics

Comparative Map Data
Cdkn2d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8828,108,036 - 28,110,809 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl828,108,044 - 28,110,809 (-)EnsemblGRCr8
mRatBN7.2819,831,874 - 19,834,640 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl819,831,866 - 19,834,674 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx823,851,704 - 23,854,497 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0822,149,553 - 22,152,346 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0820,061,563 - 20,064,328 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Celera821,223,465 - 21,226,230 (-)NCBICelera
Cytogenetic Map8q13NCBI
CDKN2D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381910,566,460 - 10,568,979 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1910,566,460 - 10,569,059 (-)Ensemblhg38GRCh38
GRCh371910,677,136 - 10,679,655 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361910,538,138 - 10,540,655 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341910,538,138 - 10,540,655NCBI
Celera1910,571,882 - 10,574,399 (-)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef1910,255,057 - 10,257,571 (-)NCBIHuRef
CHM1_11910,677,886 - 10,680,400 (-)NCBICHM1_1
T2T-CHM13v2.01910,692,920 - 10,695,436 (-)NCBIT2T-CHM13v2.0
Cdkn2d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39921,199,759 - 21,202,553 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl921,199,706 - 21,202,703 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38921,288,459 - 21,291,421 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl921,288,410 - 21,291,407 (-)Ensemblmm10GRCm38
MGSCv37921,092,907 - 21,095,653 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36921,038,865 - 21,041,421 (-)NCBIMGSCv36mm8
Celera918,557,588 - 18,560,334 (-)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.76NCBI
Cdkn2d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554951,755,878 - 1,757,037 (-)Ensembl
ChiLan1.0NW_0049554951,755,280 - 1,759,125 (-)NCBIChiLan1.0ChiLan1.0
CDKN2D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22015,484,899 - 15,487,580 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11914,483,496 - 14,486,148 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01910,118,302 - 10,120,957 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11910,780,683 - 10,782,829 (-)NCBIPanPan1.1PanPan1.1panPan2
CDKN2D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12050,607,382 - 50,609,929 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2050,607,674 - 50,609,482 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2050,479,638 - 50,482,207 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02051,130,501 - 51,133,072 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2051,130,778 - 51,133,070 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12050,337,348 - 50,339,917 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02050,765,427 - 50,767,996 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02051,006,476 - 51,009,047 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cdkn2d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118209,511,523 - 209,514,098 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936659840,519 - 843,117 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936659840,602 - 843,078 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDKN2D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl269,337,432 - 69,339,933 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1269,337,428 - 69,339,998 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2269,723,120 - 69,725,688 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CDKN2D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.169,579,648 - 9,582,249 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl69,579,470 - 9,582,101 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607410,408,971 - 10,411,618 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdkn2d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248282,634,654 - 2,636,701 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248282,634,347 - 2,637,123 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Cdkn2d
17 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81799410550763951Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81699464261994642Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)81038254055382540Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)81296416557964165Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)81595227960952279Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)81296416557964165Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81799386262252873Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)81038254055382540Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8132882639Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)81038254055382540Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81699464261994642Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)81296416557964165Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81799410550763951Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)81038254055382540Rat

Markers in Region
RH143781  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera821,223,565 - 21,223,808UniSTS
RH 3.4 Map8181.3UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
7 1 18 52 67 138 95 11 51 36 32 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000095108   ⟹   ENSRNOP00000077513
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl828,108,044 - 28,110,809 (-)Ensembl
mRatBN7.2 Ensembl819,831,866 - 19,834,674 (-)Ensembl
RefSeq Acc Id: NM_001009719   ⟹   NP_001009719
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8828,108,044 - 28,110,809 (-)NCBI
mRatBN7.2819,831,874 - 19,834,640 (-)NCBI
Celera821,223,465 - 21,226,230 (-)RGD
Sequence:
RefSeq Acc Id: XM_063265956   ⟹   XP_063122026
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8828,108,036 - 28,110,339 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001009719 (Get FASTA)   NCBI Sequence Viewer  
  XP_063122026 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH63185 (Get FASTA)   NCBI Sequence Viewer  
  AAH88350 (Get FASTA)   NCBI Sequence Viewer  
  EDL78306 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000077513
  ENSRNOP00000077513.1
RefSeq Acc Id: NP_001009719   ⟸   NM_001009719
- UniProtKB: Q6P4Z7 (UniProtKB/TrEMBL),   A0A8I5Y1N2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000077513   ⟸   ENSRNOT00000095108
RefSeq Acc Id: XP_063122026   ⟸   XM_063265956
- Peptide Label: isoform X1

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1593190 AgrOrtholog
BioCyc Gene G2FUF-31426 BioCyc
Ensembl Genes ENSRNOG00000064248 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000095108 ENTREZGENE
  ENSRNOT00000095108.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.20 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6889848 IMAGE-MGC_LOAD
  IMAGE:7368483 IMAGE-MGC_LOAD
InterPro Ank_Repeat/CDKN_Inhibitor UniProtKB/TrEMBL
  Ankyrin_rpt UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/TrEMBL
KEGG Report rno:494444 UniProtKB/TrEMBL
MGC_CLONE MGC:109660 IMAGE-MGC_LOAD
  MGC:73010 IMAGE-MGC_LOAD
NCBI Gene 494444 ENTREZGENE
PANTHER ANK_REP_REGION DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  CYCLIN-DEPENDENT KINASE 4 INHIBITOR D UniProtKB/TrEMBL
Pfam Ank UniProtKB/TrEMBL
  Ank_2 UniProtKB/TrEMBL
PhenoGen Cdkn2d PhenoGen
PROSITE ANK_REP_REGION UniProtKB/TrEMBL
  ANK_REPEAT UniProtKB/TrEMBL
RatGTEx ENSRNOG00000064248 RatGTEx
SMART ANK UniProtKB/TrEMBL
Superfamily-SCOP ANK UniProtKB/TrEMBL
UniProt A0A8I5Y1N2 ENTREZGENE, UniProtKB/TrEMBL
  Q6P4Z7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-01-28 Cdkn2d  cyclin dependent kinase inhibitor 2D  Cdkn2d  similar to cyclin-dependent kinase inhibitor 2D  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 Cdkn2d  similar to cyclin-dependent kinase inhibitor 2D      Symbol and Name status set to provisional 70820 PROVISIONAL