Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CBX5 (chromobox 5)

Identity

Alias (NCBI)HEL25
HP1
HP1A
HGNC (Hugo) CBX5
HGNC Alias symbHP1Hs-alpha
HP1
HP1-ALPHA
HGNC Alias nameHP1 alpha homolog (Drosophila)
HGNC Previous namechromobox homolog 5 (Drosophila HP1 alpha)
 chromobox homolog 5 (HP1 alpha homolog, Drosophila)
 chromobox homolog 5
LocusID (NCBI) 23468
Atlas_Id 45904
Location 12q13.13  [Link to chromosome band 12q13]
Location_base_pair Starts at 54230942 and ends at 54280122 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)
ACTB (7p22.1)::CBX5 (12q13.13)CBX5 (12q13.13)::NFE2 (12q13.13)CBX5 (12q13.13)::TFE3 (Xp11.23)
CBX5 (12q13.13)::ZSCAN5A (19q13.43)NAV2 (11p15.1)::CBX5 (12q13.13)PDIA4 (7q36.1)::CBX5 (12q13.13)
TMEM138 (11q12.2)::CBX5 (12q13.13)CBX5 12q13.13::NFE2 12q13.13PDIA4 7q36.1::CBX5 12q13.13

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)CBX5   1555
Cards
Entrez_Gene (NCBI)CBX5    chromobox 5
AliasesHEL25; HP1; HP1A
GeneCards (Weizmann)CBX5
Ensembl hg19 (Hinxton)ENSG00000094916 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000094916 [Gene_View]  ENSG00000094916 [Sequence]  chr12:54230942-54280122 [Contig_View]  CBX5 [Vega]
ICGC DataPortalENSG00000094916
TCGA cBioPortalCBX5
AceView (NCBI)CBX5
Genatlas (Paris)CBX5
SOURCE (Princeton)CBX5
Genetics Home Reference (NIH)CBX5
Genomic and cartography
GoldenPath hg38 (UCSC)CBX5  -     chr12:54230942-54280122 -  12q13.13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CBX5  -     12q13.13   [Description]    (hg19-Feb_2009)
GoldenPathCBX5 - 12q13.13 [CytoView hg19]  CBX5 - 12q13.13 [CytoView hg38]
ImmunoBaseENSG00000094916
Genome Data Viewer NCBICBX5 [Mapview hg19]  
OMIM604478   
Gene and transcription
Genbank (Entrez)AF147443 AK023520 AK055641 AK056315 AK095108
RefSeq transcript (Entrez)NM_001127321 NM_001127322 NM_012117
Consensus coding sequences : CCDS (NCBI)CBX5
Gene ExpressionCBX5 [ NCBI-GEO ]   CBX5 [ EBI - ARRAY_EXPRESS ]   CBX5 [ SEEK ]   CBX5 [ MEM ]
Gene Expression Viewer (FireBrowse)CBX5 [ Firebrowse - Broad ]
GenevisibleExpression of CBX5 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23468
GTEX Portal (Tissue expression)CBX5
Human Protein AtlasENSG00000094916-CBX5 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP45973   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP45973  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP45973
PhosPhoSitePlusP45973
Domaine pattern : Prosite (Expaxy)CHROMO_1 (PS00598)    CHROMO_2 (PS50013)   
Domains : Interpro (EBI)Chromo-like_dom_sf    Chromo/chromo_shadow_dom    Chromo_dom_subgr    Chromo_domain    Chromo_shadow_dom    Chromodomain_CS   
Domain families : Pfam (Sanger)Chromo (PF00385)    Chromo_shadow (PF01393)   
Domain families : Pfam (NCBI)pfam00385    pfam01393   
Domain families : Smart (EMBL)CHROMO (SM00298)  ChSh (SM00300)  
Conserved Domain (NCBI)CBX5
PDB (RSDB)3FDT    3I3C   
PDB Europe3FDT    3I3C   
PDB (PDBSum)3FDT    3I3C   
PDB (IMB)3FDT    3I3C   
Structural Biology KnowledgeBase3FDT    3I3C   
SCOP (Structural Classification of Proteins)3FDT    3I3C   
CATH (Classification of proteins structures)3FDT    3I3C   
SuperfamilyP45973
AlphaFold pdb e-kbP45973   
Human Protein Atlas [tissue]ENSG00000094916-CBX5 [tissue]
HPRD05131
Protein Interaction databases
DIP (DOE-UCLA)P45973
IntAct (EBI)P45973
BioGRIDCBX5
STRING (EMBL)CBX5
ZODIACCBX5
Ontologies - Pathways
QuickGOP45973
Ontology : AmiGOhistone deacetylase complex  negative regulation of transcription by RNA polymerase II  negative regulation of transcription by RNA polymerase II  kinetochore  chromosome, telomeric region  heterochromatin  chromatin binding  protein binding  nucleus  nuclear envelope  nucleoplasm  nucleoplasm  pericentric heterochromatin  pericentric heterochromatin  pericentric heterochromatin  nucleolus  chromatin organization  cellular response to DNA damage stimulus  chromocenter  PML body  transcription repressor complex  protein-macromolecule adaptor activity  protein-containing complex  methylated histone binding  methylated histone binding  histone methyltransferase complex  identical protein binding  histone deacetylase binding  ribonucleoprotein complex binding  protein-containing complex binding  negative regulation of transcription, DNA-templated  negative regulation of transcription, DNA-templated  site of DNA damage  DNA-binding transcription factor binding  ribonucleoprotein complex  
Ontology : EGO-EBIhistone deacetylase complex  negative regulation of transcription by RNA polymerase II  negative regulation of transcription by RNA polymerase II  kinetochore  chromosome, telomeric region  heterochromatin  chromatin binding  protein binding  nucleus  nuclear envelope  nucleoplasm  nucleoplasm  pericentric heterochromatin  pericentric heterochromatin  pericentric heterochromatin  nucleolus  chromatin organization  cellular response to DNA damage stimulus  chromocenter  PML body  transcription repressor complex  protein-macromolecule adaptor activity  protein-containing complex  methylated histone binding  methylated histone binding  histone methyltransferase complex  identical protein binding  histone deacetylase binding  ribonucleoprotein complex binding  protein-containing complex binding  negative regulation of transcription, DNA-templated  negative regulation of transcription, DNA-templated  site of DNA damage  DNA-binding transcription factor binding  ribonucleoprotein complex  
NDEx NetworkCBX5
Atlas of Cancer Signalling NetworkCBX5
Wikipedia pathwaysCBX5
Orthology - Evolution
OrthoDB23468
GeneTree (enSembl)ENSG00000094916
Phylogenetic Trees/Animal Genes : TreeFamCBX5
Homologs : HomoloGeneCBX5
Homology/Alignments : Family Browser (UCSC)CBX5
Gene fusions - Rearrangements
Fusion : MitelmanCBX5::NFE2 [12q13.13/12q13.13]  
Fusion : MitelmanPDIA4::CBX5 [7q36.1/12q13.13]  
Fusion : QuiverCBX5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCBX5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CBX5
dbVarCBX5
ClinVarCBX5
MonarchCBX5
1000_GenomesCBX5 
Exome Variant ServerCBX5
GNOMAD BrowserENSG00000094916
Varsome BrowserCBX5
ACMGCBX5 variants
VarityP45973
Genomic Variants (DGV)CBX5 [DGVbeta]
DECIPHERCBX5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCBX5 
Mutations
ICGC Data PortalCBX5 
TCGA Data PortalCBX5 
Broad Tumor PortalCBX5
OASIS PortalCBX5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCBX5  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DCBX5
Mutations and Diseases : HGMDCBX5
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaCBX5
DgiDB (Drug Gene Interaction Database)CBX5
DoCM (Curated mutations)CBX5
CIViC (Clinical Interpretations of Variants in Cancer)CBX5
Cancer3DCBX5
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604478   
Orphanet
DisGeNETCBX5
MedgenCBX5
Genetic Testing Registry CBX5
NextProtP45973 [Medical]
GENETestsCBX5
Target ValidationCBX5
Huge Navigator CBX5 [HugePedia]
ClinGenCBX5
Clinical trials, drugs, therapy
MyCancerGenomeCBX5
Protein Interactions : CTDCBX5
Pharm GKB GenePA26130
PharosP45973
Clinical trialCBX5
Miscellaneous
canSAR (ICR)CBX5
HarmonizomeCBX5
ARCHS4CBX5
DataMed IndexCBX5
Probes
Litterature
PubMed259 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXCBX5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Jan 20 12:25:53 CET 2022

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