Human Gene CDKN2C (ENST00000371761.4_4) from GENCODE V47lift37
  Description: cyclin dependent kinase inhibitor 2C, transcript variant 2 (from RefSeq NM_078626.3)
Gencode Transcript: ENST00000371761.4_4
Gencode Gene: ENSG00000123080.12_9
Transcript (Including UTRs)
   Position: hg19 chr1:51,435,917-51,440,306 Size: 4,390 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr1:51,436,041-51,439,942 Size: 3,902 Coding Exon Count: 2 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:51,435,917-51,440,306)mRNA (may differ from genome)Protein (168 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: CDKN2C
Diseases sorted by gene-association score: multiple endocrine neoplasia 1* (18), oligodendroglioma (17), choriocarcinoma of the testis (15), anaplastic oligodendroglioma (9), parathyroid adenoma (9), angular cheilitis (8), multiple endocrine neoplasia, type iv (7), leukemia, acute lymphoblastic (2), meningioma, familial (1), malignant melanoma, somatic (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • C057693 troglitazone
  • D001564 Benzo(a)pyrene
  • D016572 Cyclosporine
  • D004052 Diethylnitrosamine
  • D013749 Tetrachlorodibenzodioxin
  • C005961 bis(tri-n-butyltin)oxide
  • C006780 bisphenol A
  • C517041 (4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II)
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone
          more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.07 RPKM in Adipose - Visceral (Omentum)
Total median expression: 239.67 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -26.10124-0.210 Picture PostScript Text
3' UTR -63.30364-0.174 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002110 - Ankyrin_rpt
IPR020683 - Ankyrin_rpt-contain_dom

Pfam Domains:
PF00023 - Ankyrin repeat
PF12796 - Ankyrin repeats (3 copies)
PF13606 - Ankyrin repeat
PF13637 - Ankyrin repeats (many copies)
PF13857 - Ankyrin repeats (many copies)

SCOP Domains:
140860 - Pseudo ankyrin repeat-like
48403 - Ankyrin repeat

ModBase Predicted Comparative 3D Structure on Q6ICV4
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004861 cyclin-dependent protein serine/threonine kinase inhibitor activity
GO:0016301 kinase activity
GO:0019901 protein kinase binding

Biological Process:
GO:0008285 negative regulation of cell proliferation
GO:0016310 phosphorylation
GO:0045736 negative regulation of cyclin-dependent protein serine/threonine kinase activity
GO:0048709 oligodendrocyte differentiation


-  Descriptions from all associated GenBank mRNAs
  AK091170 - Homo sapiens cDNA FLJ33851 fis, clone CTONG2005635, highly similar to CYCLIN-DEPENDENT KINASE 6 INHIBITOR.
LF212983 - JP 2014500723-A/20486: Polycomb-Associated Non-Coding RNAs.
AF041248 - Homo sapiens cyclin-dependent kinase inhibitor (CDKN2C) mRNA, complete cds.
BC000598 - Homo sapiens cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4), mRNA (cDNA clone MGC:1987 IMAGE:3347370), complete cds.
BC005041 - Homo sapiens cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4), mRNA (cDNA clone MGC:12768 IMAGE:3160354), complete cds.
AK021794 - Homo sapiens cDNA FLJ11732 fis, clone HEMBA1005423, highly similar to Homo sapiens cyclin-dependent kinase inhibitor (CDKN2C) mRNA.
BC017036 - Homo sapiens cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4), mRNA (cDNA clone IMAGE:3883815).
BC016173 - Homo sapiens cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4), mRNA (cDNA clone MGC:17155 IMAGE:3907917), complete cds.
JD320233 - Sequence 301257 from Patent EP1572962.
JD515808 - Sequence 496832 from Patent EP1572962.
U17074 - Human CDK6 inhibitor p18 mRNA, complete cds.
JD241601 - Sequence 222625 from Patent EP1572962.
JD184833 - Sequence 165857 from Patent EP1572962.
CU674290 - Synthetic construct Homo sapiens gateway clone IMAGE:100022979 5' read CDKN2C mRNA.
KJ890889 - Synthetic construct Homo sapiens clone ccsbBroadEn_00283 CDKN2C gene, encodes complete protein.
KR711451 - Synthetic construct Homo sapiens clone CCSBHm_00023767 CDKN2C (CDKN2C) mRNA, encodes complete protein.
AB587581 - Synthetic construct DNA, clone: pF1KB8877, Homo sapiens CDKN2C gene for cyclin-dependent kinase inhibitor 2C, without stop codon, in Flexi system.
CR450289 - Homo sapiens full open reading frame cDNA clone RZPDo834B031D for gene CDKN2C, cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4); complete cds; without stopcodon.
DQ894707 - Synthetic construct Homo sapiens clone IMAGE:100009167; FLH177644.01L; RZPDo839C06125D cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4) (CDKN2C) gene, encodes complete protein.
DQ891516 - Synthetic construct clone IMAGE:100004146; FLH177648.01X; RZPDo839C06126D cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4) (CDKN2C) gene, encodes complete protein.
JD154668 - Sequence 135692 from Patent EP1572962.
MA448560 - JP 2018138019-A/20486: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_cellcyclePathway - Cyclins and Cell Cycle Regulation

-  Other Names for This Gene
  Alternate Gene Symbols: CDKN2C , D3DQ28, ENST00000371761.1, ENST00000371761.2, ENST00000371761.3, hCG_40289 , NM_078626, Q6ICV4, Q6ICV4_HUMAN, uc318jju.1, uc318jju.2
UCSC ID: ENST00000371761.4_4
RefSeq Accession: NM_078626.3
Protein: Q6ICV4

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.