Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

CBX4 (chromobox 4)

Identity

Alias_nameschromobox homolog 4 (Drosophila Pc class)
chromobox homolog 4
Alias_symbol (synonym)hPC2
PC2
NBP16
Other alias
HGNC (Hugo) CBX4
LocusID (NCBI) 8535
Atlas_Id 46645
Location 17q25.3  [Link to chromosome band 17q25]
Location_base_pair Starts at 79833156 and ends at 79839414 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
CBX4 (17q25.3) / DBI (2q14.2)CBX4 (17q25.3) / EFCAB5 (17q11.2)CBX4 (17q25.3) / RFK (9q21.13)
CBX4 17q25.3 / EFCAB5 17q11.2CBX4 17q25.3 / RFK 9q21.13

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)CBX4   1554
Cards
Entrez_Gene (NCBI)CBX4  8535  chromobox 4
AliasesNBP16; PC2
GeneCards (Weizmann)CBX4
Ensembl hg19 (Hinxton)ENSG00000141582 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000141582 [Gene_View]  chr17:79833156-79839414 [Contig_View]  CBX4 [Vega]
ICGC DataPortalENSG00000141582
TCGA cBioPortalCBX4
AceView (NCBI)CBX4
Genatlas (Paris)CBX4
WikiGenes8535
SOURCE (Princeton)CBX4
Genetics Home Reference (NIH)CBX4
Genomic and cartography
GoldenPath hg38 (UCSC)CBX4  -     chr17:79833156-79839414 -  17q25.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CBX4  -     17q25.3   [Description]    (hg19-Feb_2009)
EnsemblCBX4 - 17q25.3 [CytoView hg19]  CBX4 - 17q25.3 [CytoView hg38]
Mapping of homologs : NCBICBX4 [Mapview hg19]  CBX4 [Mapview hg38]
OMIM603079   
Gene and transcription
Genbank (Entrez)AF013956 AI796748 AY390430 BC014967 BG029608
RefSeq transcript (Entrez)NM_003655
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CBX4
Cluster EST : UnigeneHs.405046 [ NCBI ]
CGAP (NCI)Hs.405046
Alternative Splicing GalleryENSG00000141582
Gene ExpressionCBX4 [ NCBI-GEO ]   CBX4 [ EBI - ARRAY_EXPRESS ]   CBX4 [ SEEK ]   CBX4 [ MEM ]
Gene Expression Viewer (FireBrowse)CBX4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)8535
GTEX Portal (Tissue expression)CBX4
Human Protein AtlasENSG00000141582-CBX4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO00257   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO00257  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO00257
Splice isoforms : SwissVarO00257
Catalytic activity : Enzyme6.3.2.- [ Enzyme-Expasy ]   6.3.2.-6.3.2.- [ IntEnz-EBI ]   6.3.2.- [ BRENDA ]   6.3.2.- [ KEGG ]   
PhosPhoSitePlusO00257
Domaine pattern : Prosite (Expaxy)CHROMO_1 (PS00598)    CHROMO_2 (PS50013)   
Domains : Interpro (EBI)CBX7_C    Chromo/chromo_shadow_dom    Chromo_dom_subgr    Chromo_domain    Chromodomain-like    Chromodomain_CS   
Domain families : Pfam (Sanger)CBX7_C (PF17218)    Chromo (PF00385)   
Domain families : Pfam (NCBI)pfam17218    pfam00385   
Domain families : Smart (EMBL)CHROMO (SM00298)  
Conserved Domain (NCBI)CBX4
DMDM Disease mutations8535
Blocks (Seattle)CBX4
PDB (SRS)2K28    3I8Z    5EPL   
PDB (PDBSum)2K28    3I8Z    5EPL   
PDB (IMB)2K28    3I8Z    5EPL   
PDB (RSDB)2K28    3I8Z    5EPL   
Structural Biology KnowledgeBase2K28    3I8Z    5EPL   
SCOP (Structural Classification of Proteins)2K28    3I8Z    5EPL   
CATH (Classification of proteins structures)2K28    3I8Z    5EPL   
SuperfamilyO00257
Human Protein Atlas [tissue]ENSG00000141582-CBX4 [tissue]
Peptide AtlasO00257
HPRD04357
IPIIPI00218135   IPI00010872   
Protein Interaction databases
DIP (DOE-UCLA)O00257
IntAct (EBI)O00257
FunCoupENSG00000141582
BioGRIDCBX4
STRING (EMBL)CBX4
ZODIACCBX4
Ontologies - Pathways
QuickGOO00257
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  chromatin binding  transcription corepressor activity  single-stranded RNA binding  protein binding  nucleus  nucleoplasm  nucleoplasm  transcription, DNA-templated  covalent chromatin modification  nuclear body  nuclear speck  ligase activity  protein sumoylation  SUMO transferase activity  enzyme binding  PcG protein complex  SUMO binding  methylated histone binding  PRC1 complex  negative regulation of apoptotic process  transcription regulatory region DNA binding  negative regulation of transcription, DNA-templated  phosphoprotein binding  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  chromatin binding  transcription corepressor activity  single-stranded RNA binding  protein binding  nucleus  nucleoplasm  nucleoplasm  transcription, DNA-templated  covalent chromatin modification  nuclear body  nuclear speck  ligase activity  protein sumoylation  SUMO transferase activity  enzyme binding  PcG protein complex  SUMO binding  methylated histone binding  PRC1 complex  negative regulation of apoptotic process  transcription regulatory region DNA binding  negative regulation of transcription, DNA-templated  phosphoprotein binding  
Pathways : BIOCARTAThe PRC2 Complex Sets Long-term Gene Silencing Through Modification of Histone Tails [Genes]   
NDEx NetworkCBX4
Atlas of Cancer Signalling NetworkCBX4
Wikipedia pathwaysCBX4
Orthology - Evolution
OrthoDB8535
GeneTree (enSembl)ENSG00000141582
Phylogenetic Trees/Animal Genes : TreeFamCBX4
HOVERGENO00257
HOGENOMO00257
Homologs : HomoloGeneCBX4
Homology/Alignments : Family Browser (UCSC)CBX4
Gene fusions - Rearrangements
Fusion : MitelmanCBX4/EFCAB5 [17q25.3/17q11.2]  
Fusion : MitelmanCBX4/RFK [17q25.3/9q21.13]  [t(9;17)(q21;q25)]  
Fusion: TCGA_MDACCCBX4 17q25.3 EFCAB5 17q11.2 BRCA
Fusion: TCGA_MDACCCBX4 17q25.3 RFK 9q21.13 LUAD
Tumor Fusion PortalCBX4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCBX4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CBX4
dbVarCBX4
ClinVarCBX4
1000_GenomesCBX4 
Exome Variant ServerCBX4
ExAC (Exome Aggregation Consortium)ENSG00000141582
GNOMAD BrowserENSG00000141582
Genetic variants : HAPMAP8535
Genomic Variants (DGV)CBX4 [DGVbeta]
DECIPHERCBX4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCBX4 
Mutations
ICGC Data PortalCBX4 
TCGA Data PortalCBX4 
Broad Tumor PortalCBX4
OASIS PortalCBX4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCBX4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCBX4
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CBX4
DgiDB (Drug Gene Interaction Database)CBX4
DoCM (Curated mutations)CBX4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CBX4 (select a term)
intoGenCBX4
Cancer3DCBX4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603079   
Orphanet
DisGeNETCBX4
MedgenCBX4
Genetic Testing Registry CBX4
NextProtO00257 [Medical]
TSGene8535
GENETestsCBX4
Target ValidationCBX4
Huge Navigator CBX4 [HugePedia]
snp3D : Map Gene to Disease8535
BioCentury BCIQCBX4
ClinGenCBX4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD8535
Chemical/Pharm GKB GenePA26129
Clinical trialCBX4
Miscellaneous
canSAR (ICR)CBX4 (select the gene name)
Probes
Litterature
PubMed75 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCBX4
EVEXCBX4
GoPubMedCBX4
iHOPCBX4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 21 14:06:09 CET 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.