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KDM4C (Gene amplified in squamous cell carcinoma 1)

Identity

Other namesJMJD2C
GASC1 (Gene amplified in squamous cell carcinoma 1)
KIAA0780
HGNC (Hugo) KDM4C
LocusID (NCBI) 23081
Location 9p24.1
Location_base_pair Starts at 6757641 and ends at 7170920 bp from pter ( according to hg19-Feb_2009)  [Mapping]

DNA/RNA

Note At least 22 exons spanning approximately 417194 bps. 4239 bp mRNA; coding sequence: 3171 bp

Protein

Description 1056 ammino acid; possesses PHD domain

Implicated in

Entity amplification and overexpression in cell lines derived from esophageal squamous cell carcinomas
  

External links

Nomenclature
HGNC (Hugo)KDM4C   17071
Cards
AtlasGASC1ID432
Entrez_Gene (NCBI)KDM4C  23081  lysine (K)-specific demethylase 4C
GeneCards (Weizmann)KDM4C
Ensembl (Hinxton)ENSG00000107077 [Gene_View]  chr9:6757641-7170920 [Contig_View]  KDM4C [Vega]
ICGC DataPortalENSG00000107077
cBioPortalKDM4C
AceView (NCBI)KDM4C
Genatlas (Paris)KDM4C
WikiGenes23081
SOURCE (Princeton)NM_001146694 NM_001146695 NM_001146696 NM_015061
Genomic and cartography
GoldenPath (UCSC)KDM4C  -  9p24.1   chr9:6757641-7170920 +  9p24-p23   [Description]    (hg19-Feb_2009)
EnsemblKDM4C - 9p24-p23 [CytoView]
Mapping of homologs : NCBIKDM4C [Mapview]
OMIM605469   
Gene and transcription
Genbank (Entrez)AB018323 AB037901 AF085959 AI017056 AK296401
RefSeq transcript (Entrez)NM_001146694 NM_001146695 NM_001146696 NM_015061
RefSeq genomic (Entrez)AC_000141 NC_000009 NC_018920 NT_008413 NW_001839149 NW_004929342
Consensus coding sequences : CCDS (NCBI)KDM4C
Cluster EST : UnigeneHs.709425 [ NCBI ]
CGAP (NCI)Hs.709425
Alternative Splicing : Fast-db (Paris)GSHG0030014
Alternative Splicing GalleryENSG00000107077
Gene ExpressionKDM4C [ NCBI-GEO ]     KDM4C [ SEEK ]   KDM4C [ MEM ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H3R0 (Uniprot)
NextProtQ9H3R0  [Medical]
With graphics : InterProQ9H3R0
Splice isoforms : SwissVarQ9H3R0 (Swissvar)
Catalytic activity : Enzyme1.14.11.- [ Enzyme-Expasy ]   1.14.11.-1.14.11.- [ IntEnz-EBI ]   1.14.11.- [ BRENDA ]   1.14.11.- [ KEGG ]   
Domaine pattern : Prosite (Expaxy)JMJC (PS51184)    JMJN (PS51183)   
Domains : Interpro (EBI)JmjC_dom [organisation]   TF_JmjN [organisation]   Tudor [organisation]   Znf_FYVE_PHD [organisation]   Znf_PHD [organisation]  
Related proteins : CluSTrQ9H3R0
Domain families : Pfam (Sanger)JmjC (PF02373)    JmjN (PF02375)   
Domain families : Pfam (NCBI)pfam02373    pfam02375   
Domain families : Smart (EMBL)JmjC (SM00558)  JmjN (SM00545)  PHD (SM00249)  TUDOR (SM00333)  
DMDM Disease mutations23081
Blocks (Seattle)Q9H3R0
PDB (SRS)2XDP    2XML   
PDB (PDBSum)2XDP    2XML   
PDB (IMB)2XDP    2XML   
PDB (RSDB)2XDP    2XML   
Human Protein AtlasENSG00000107077 [gene] [tissue] [antibody] [cell] [cancer]
Peptide AtlasQ9H3R0
HPRD12016
IPIIPI00027642   IPI00645825   IPI01018984   IPI00910024   IPI01010286   IPI00878778   IPI00929542   IPI00552718   IPI00878239   
Protein Interaction databases
DIP (DOE-UCLA)Q9H3R0
IntAct (EBI)Q9H3R0
FunCoupENSG00000107077
BioGRIDKDM4C
InParanoidQ9H3R0
Interologous Interaction database Q9H3R0
IntegromeDBKDM4C
STRING (EMBL)KDM4C
Ontologies - Pathways
Ontology : AmiGOnuclear chromatin  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  zinc ion binding  positive regulation of cell proliferation  enzyme binding  histone demethylase activity (H3-K9 specific)  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  histone H3-K9 demethylation  androgen receptor binding  dioxygenase activity  oxidation-reduction process  
Ontology : EGO-EBInuclear chromatin  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  zinc ion binding  positive regulation of cell proliferation  enzyme binding  histone demethylase activity (H3-K9 specific)  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  histone H3-K9 demethylation  androgen receptor binding  dioxygenase activity  oxidation-reduction process  
Protein Interaction DatabaseKDM4C
Wikipedia pathwaysKDM4C
Gene fusion - rearrangments
Polymorphisms : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)KDM4C
snp3D : Map Gene to Disease23081
SNP (GeneSNP Utah)KDM4C
SNP : HGBaseKDM4C
Genetic variants : HAPMAPKDM4C
Exome VariantKDM4C
1000_GenomesKDM4C 
ICGC programENSG00000107077 
Somatic Mutations in Cancer : COSMICKDM4C 
CONAN: Copy Number AnalysisKDM4C 
Mutations and Diseases : HGMDKDM4C
Genomic VariantsKDM4C  KDM4C [DGVbeta]
dbVarKDM4C
ClinVarKDM4C
Pred. of missensesPolyPhen-2  SIFT(SG)  SIFT(JCVI)  Align-GVGD  MutAssessor  Mutanalyser  
Pred. splicesGeneSplicer  Human Splicing Finder  MaxEntScan  
Diseases
OMIM605469   
MedgenKDM4C
GENETestsKDM4C
Disease Genetic AssociationKDM4C
Huge Navigator KDM4C [HugePedia]  KDM4C [HugeCancerGEM]
General knowledge
Homologs : HomoloGeneKDM4C
Homology/Alignments : Family Browser (UCSC)KDM4C
Phylogenetic Trees/Animal Genes : TreeFamKDM4C
Chemical/Protein Interactions : CTD23081
Chemical/Pharm GKB GenePA164721503
Clinical trialKDM4C
Cancer Resource (Charite)ENSG00000107077
Other databases
Probes
Litterature
PubMed35 Pubmed reference(s) in Entrez
CoreMineKDM4C
iHOPKDM4C
OncoSearchKDM4C

Bibliography

Identification of a novel gene, GASC1, within an amplicon at 9p23-24 frequently detected in esophageal cancer cell lines.
Yang ZQ, Imoto I, Fukuda Y, Pimkhaokham A, Shimada Y, Imamura M, Sugano S, Nakamura Y, Inazawa J
Cancer research. 2000 ; 60 (17) : 4735-4739.
PMID 10987278
 
A novel amplicon at 9p23 - 24 in squamous cell carcinoma of the esophagus that lies proximal to GASC1 and harbors NFIB.
Yang ZQ, Imoto I, Pimkhaokham A, Shimada Y, Sasaki K, Oka M, Inazawa J
Japanese journal of cancer research : Gann. 2001 ; 92 (4) : 423-428.
PMID 11346465
 
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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Contributor(s)

Written12-2002Zeng-Quan Yang
University of Michigan, Department of Radiation Oncology, RM. 7121 CCGC, 1500 E Med Ctr. Dr., Ann Arbor, MI 48109-0948, USA

Citation

This paper should be referenced as such :
Yang, ZQ
GASC1 (gene amplified in squamous cell carcinoma 1)
Atlas Genet Cytogenet Oncol Haematol. 2003;7(1):21-21.
Free online version   Free pdf version   [Bibliographic record ]
URL : http://AtlasGeneticsOncology.org/Genes/GASC1ID432.html

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Jul 30 16:53:26 CEST 2014

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