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CBX5 Gene

protein-coding   GIFtS: 63
GCID: GC12M054624

Chromobox Homolog 5

(Previous names: chromobox homolog 5 (Drosophila HP1 alpha), chromobox homolog...)
  Search for CBX5
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Chromobox Homolog 51 2     HP12
Chromobox Homolog 5 (HP1 Alpha Homolog, Drosophila)1 2     HP1-ALPHA2
Antigen P252 3     Chromobox Protein Homolog 52
Heterochromatin Protein 1 Homolog Alpha2 3     Epididymis Luminal Protein 252
HP1A2 3     Heterochromatin Protein 1-Alpha2
Chromobox Homolog 5 (Drosophila HP1 Alpha)1     HP1 Alpha Homolog2
HP1 Alpha Homolog (Drosophila)1     HP1Hs Alpha2
HEL252     HP1 Alpha3

External Ids:    HGNC: 15551   Entrez Gene: 234682   Ensembl: ENSG000000949167   OMIM: 6044785   UniProtKB: P459733   

Export aliases for CBX5 gene to outside databases

Previous GC identifers: GC12M054761 GC12M054351 GC12M052921


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CBX5 Gene:
This gene encodes a highly conserved nonhistone protein, which is a member of the heterochromatin protein family.
The protein is enriched in the heterochromatin and associated with centromeres. The protein has a single
N-terminal chromodomain which can bind to histone proteins via methylated lysine residues, and a C-terminal
chromo shadow-domain (CSD) which is responsible for the homodimerization and interaction with a number of
chromatin-associated nonhistone proteins. The encoded product is involved in the formation of functional
kinetochore through interaction with essential kinetochore proteins. The gene has a pseudogene located on
chromosome 3. Multiple alternatively spliced variants, encoding the same protein, have been identified. (provided
by RefSeq, Jul 2008)

GeneCards Summary for CBX5 Gene:
CBX5 (chromobox homolog 5) is a protein-coding gene. GO annotations related to this gene include enzyme binding and protein homodimerization activity. An important paralog of this gene is CBX3.

UniProtKB/Swiss-Prot: CBX5_HUMAN, P45973
Function: Component of heterochromatin that recognizes and binds histone H3 tails methylated at 'Lys-9' (H3K9me),
leading to epigenetic repression. In contrast, it is excluded from chromatin when 'Tyr-41' of histone H3 is
phosphorylated (H3Y41ph). Can interact with lamin-B receptor (LBR). This interaction can contribute to the
association of the heterochromatin with the inner nuclear membrane. Involved in the formation of functional
kinetochore through interaction with MIS12 complex proteins

Gene Wiki entry for CBX5 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000012.11  NC_018923.2  NT_029419.13  
Regulatory elements:
   Regulatory transcription factor binding sites in the CBX5 gene promoter:
         TBP   AML1a   C/EBPalpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCBX5 promoter sequence
   Search Chromatin IP Primers for CBX5

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CBX5


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 12q13.13   Ensembl cytogenetic band:  12q13.13   HGNC cytogenetic band: 12q13.13

CBX5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CBX5 gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M054624:  view genomic region     (about GC identifiers)

Start:
54,624,724 bp from pter      End:
54,673,915 bp from pter
Size:
49,192 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: CBX5_HUMAN, P45973 (See protein sequence)
Recommended Name: Chromobox protein homolog 5  
Size: 191 amino acids; 22225 Da
Subunit: Interacts with SUV420H1 and SUV420H2 (By similarity). Interacts with HP1BP3 (By similarity). Interacts
directly with ATRX, CHAF1A, LBR, NIPBL, SP100, STAM2 and TRIM28 via the chromoshadow domain. Can interact
directly with CBX3 via the chromoshadow domain. Interacts with histone H3 methylated at 'Lys-9'. Interacts with
BAHD1, MIS12 and DSN1. Interacts with POGZ; POGZ and PXVXL motif-containing proteins such as INCENP and TRIM28
compete for interaction with CBX5. Interacts with INCENP and TRIM24. Interacts with JC virus agnoprotein; this
interaction induces the dissociation of CBX5 from LBR, resulting in destabilization of the nuclear envelope.
Interacts with CHAMP1. Interacts with ASXL1
2 PDB 3D structures from and Proteopedia for CBX5:
3FDT (3D)        3I3C (3D)    
Secondary accessions: B2R8T9

Explore the universe of human proteins at neXtProt for CBX5: NX_P45973

Explore proteomics data for CBX5 at MOPED

Post-translational modifications: 

  • Phosphorylation of HP1 and LBR may be responsible for some of the alterations in chromatin organization and
    nuclear structure which occur at various times during the cell cycle (By similarity). Phosphorylated during
    interphase and possibly hyper-phosphorylated during mitosis1
  • Ubiquitinated1
  • Ubiquitination2 at Lys32, Lys40, Lys42, Lys91, Lys102, Lys125, Lys143, Lys154, Lys159
  • Modification sites at PhosphoSitePlus

  • See CBX5 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001120793.1  NP_001120794.1  NP_036249.1  

    ENSEMBL proteins: 
     ENSP00000209875   ENSP00000401009   ENSP00000449207   ENSP00000450190  
    Reactome Protein details: P45973

    CBX5 Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
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    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Proteins for CBX5
    OriGene Protein Over-expression Lysate for CBX5
    OriGene MassSpec for CBX5
    OriGene Custom Protein Services for CBX5
    GenScript Custom Purified and Recombinant Proteins Services for CBX5
    Novus Biologicals CBX5 Proteins
    Novus Biologicals CBX5 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    ProSpec Recombinant Protein for CBX5
    Browse Proteins at Cloud-Clone Corp.

     
    Search eBioscience for Proteins for CBX5 

    CBX5 Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of CBX5
    Browse R&D Systems for Antibodies
    Cell Signaling Technology (CST) Antibodies for CBX5  (HP1 alpha)
    OriGene Antibodies for CBX5
    OriGene Custom Antibody Services for CBX5
    Novus Biologicals CBX5 Antibodies
    Abcam antibodies for CBX5
    Browse Antibodies at Cloud-Clone Corp.
    ThermoFisher Antibodies for CBX5
    LSBio Antibodies in human, mouse, rat for CBX5

    CBX5 Assay Products:

    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for CBX5
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for CBX5
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.
    Search eBioscience for ELISAs for CBX5 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    Selected InterPro protein domains (see all 6):
     IPR000953 Chromo_domain/shadow
     IPR023780 Chromo_domain
     IPR016197 Chromodomain-like
     IPR023779 Chromodomain_CS
     IPR017984 Chromo_dom_subgr

    Graphical View of Domain Structure for InterPro Entry P45973

    ProtoNet protein and cluster: P45973

    2 Blocks protein domains:
    IPB000953 Chromo domain
    IPB008251 Chromo shadow


    UniProtKB/Swiss-Prot: CBX5_HUMAN, P45973
    Similarity: Contains 2 chromo domains


    Find genes that share domains with CBX5           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CBX5_HUMAN, P45973
    Function: Component of heterochromatin that recognizes and binds histone H3 tails methylated at 'Lys-9' (H3K9me),
    leading to epigenetic repression. In contrast, it is excluded from chromatin when 'Tyr-41' of histone H3 is
    phosphorylated (H3Y41ph). Can interact with lamin-B receptor (LBR). This interaction can contribute to the
    association of the heterochromatin with the inner nuclear membrane. Involved in the formation of functional
    kinetochore through interaction with MIS12 complex proteins

         Gene Ontology (GO): Selected molecular function terms (see all 9):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003682chromatin binding IEA--
    GO:0005515protein binding IPI10330177
    GO:0019899enzyme binding IPI19486527
    GO:0030674protein binding, bridging ISS--
    GO:0035064methylated histone residue binding IDA19783980
         
    Find genes that share ontologies with CBX5           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for CBX5:
     Increased gamma-H2AX phosphory 

         5 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Cbx5):
     hematopoietic system  immune system  mortality/aging  normal  skeleton 

    Find genes that share phenotypes with CBX5           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Cbx5tm1.1Ics for CBX5

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CBX5
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for CBX5

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for CBX5
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for CBX5

    miRNA
    Products:
        
    miRTarBase miRNAs that target CBX5:
    hsa-mir-197-3p (MIRT048055), hsa-mir-92a-3p (MIRT049796), hsa-mir-320a (MIRT044429), hsa-mir-339-5p (MIRT042774), hsa-mir-1 (MIRT023531), hsa-mir-98-5p (MIRT004950), hsa-let-7b-5p (MIRT052318), hsa-mir-484 (MIRT041993), hsa-let-7e-5p (MIRT051655)

    Block miRNA regulation of human, mouse, rat CBX5 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CBX5 (see all 261):
    hsa-miR-411* hsa-miR-605 hsa-miR-376a* hsa-miR-3116 hsa-miR-200b hsa-miR-509-3-5p hsa-miR-761 hsa-miR-200c*
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for CBX5
    Predesigned siRNA for gene silencing in human, mouse, rat CBX5

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for CBX5

    Clone
    Products:
         
    OriGene clones in human, mouse for CBX5 (see all 14)
    OriGene ORF clones in mouse, rat for CBX5
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 3): CBX5 (NM_012117)
    Sino Biological Human cDNA Clone for CBX5
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CBX5
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CBX5
    Addgene plasmids for CBX5 

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for CBX5 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CBX5


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    CBX5_HUMAN, P45973: Nucleus. Chromosome. Chromosome, centromere. Note=Component of centromeric and
    pericentromeric heterochromatin. Associates with chromosomes during mitosis. Associates specifically with
    chromatin during metaphase and anaphase
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol3

    Gene Ontology (GO): Selected cellular component terms (see all 14):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000118histone deacetylase complex ISS--
    GO:0000776kinetochore IEA--
    GO:0000792heterochromatin ----
    GO:0005634nucleus IDA--
    GO:0005635nuclear envelope TAS8663349

    Find genes that share ontologies with CBX5           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for CBX5 About   (see all 7)  
    See pathways by source

    SuperPathContained pathways About
    1Activation of the pre-replicative complex
    Cell cycle Start of DNA replication in early S phase0.53
    2Hemostasis
    Hemostasis0.43
    3Packaging Of Telomere Ends
    Histone modification0.31
    4Factors involved in megakaryocyte development and platelet production
    Factors involved in megakaryocyte development and platelet production
    5E2F transcription factor network
    E2F transcription factor network


    Find genes that share SuperPaths with CBX5           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for CBX5
        Chromatin Regulation / Acetylation

    1 GeneGo (Thomson Reuters) Pathway for CBX5
        Cell cycle Start of DNA replication in early S phase

    2 BioSystems Pathways for CBX5
        E2F transcription factor network
    Aurora B signaling


    1 Reactome Pathway for CBX5
        Factors involved in megakaryocyte development and platelet production


        Pathway & Disease-focused RT2 Profiler PCR Arrays including CBX5: 
              HIV Host Response in human mouse rat
              Polycomb & Trithorax Complexes in human mouse rat
              Epigenetic Chromatin Remodeling Factors in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for CBX5

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for CBX5 (P459731, 2, 3 ENSP000002098754) via UniProtKB, MINT, STRING, and/or I2D (see all 284)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H3CP684311, 2, 3EBI-78219,EBI-79722 MINT-2830662 MINT-2830965 MINT-8087423 MINT-2830941 MINT-8087264 MINT-8087281 MINT-7221095 MINT-8087449 MINT-7221313 MINT-8087437 I2D: score=3 
    HIST1H3DP684311, 2, 3EBI-78219,EBI-79722 MINT-2830662 MINT-2830965 MINT-8087423 MINT-2830941 MINT-8087264 MINT-8087281 MINT-7221095 MINT-8087449 MINT-7221313 MINT-8087437 I2D: score=3 
    HIST1H3EP684311, 2, 3EBI-78219,EBI-79722 MINT-2830662 MINT-2830965 MINT-8087423 MINT-2830941 MINT-8087264 MINT-8087281 MINT-7221095 MINT-8087449 MINT-7221313 MINT-8087437 I2D: score=3 
    HIST1H3FP684311, 2, 3EBI-78219,EBI-79722 MINT-2830662 MINT-2830965 MINT-8087423 MINT-2830941 MINT-8087264 MINT-8087281 MINT-7221095 MINT-8087449 MINT-7221313 MINT-8087437 I2D: score=3 
    HIST1H3GP684311, 2, 3EBI-78219,EBI-79722 MINT-2830662 MINT-2830965 MINT-8087423 MINT-2830941 MINT-8087264 MINT-8087281 MINT-7221095 MINT-8087449 MINT-7221313 MINT-8087437 I2D: score=3 
    About this table

    Gene Ontology (GO): 4 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007596blood coagulation TAS--
    GO:0016032viral process IEA--
    GO:0019048modulation by virus of host morphology or physiology ----
    GO:0045892negative regulation of transcription, DNA-templated IMP9636146

    Find genes that share ontologies with CBX5           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for CBX5

    Selected Novoseek inferred chemical compound relationships for CBX5 gene (see all 13)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    hsm 1 85 1 8200530 (1)
    lysine 54.9 5 12151603 (1), 19788305 (1), 11859155 (1), 12642487 (1) (see all 5)
    methylammonium 54.8 1 16372014 (1)
    4',6-diamidino-2-phenylindole 29.4 1 17178833 (1)
    cytosine 27.6 1 16705157 (1)
    amino acid 27.5 4 12840071 (1), 14570930 (1)
    protamine 24.1 2 10194639 (1), 11315969 (1)
    zinc 20.7 2 15342492 (1), 14570930 (1)
    retinoic acid 13 3 19880879 (1), 15507473 (1), 16569592 (1)
    tyrosine 0 1 12538453 (1)



    Find genes that share compounds with CBX5           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for CBX5 gene (3 alternative transcripts): 
    NM_001127321.1  NM_001127322.1  NM_012117.2  

    Unigene Cluster for CBX5:

    Chromobox homolog 5
    Hs.349283  [show with all ESTs]
    Unigene Representative Sequence: NM_001127322
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000209875(uc001sfh.4 uc001sfj.4 uc001sfk.4) ENST00000439541
    ENST00000547872 ENST00000550411 ENST00000552562
    miRNA
    Products:
         
    Block miRNA regulation of human, mouse, rat CBX5 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CBX5 (see all 261):
    hsa-miR-411* hsa-miR-605 hsa-miR-376a* hsa-miR-3116 hsa-miR-200b hsa-miR-509-3-5p hsa-miR-761 hsa-miR-200c*
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat CBX5
    Clone
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    OriGene clones in human, mouse for CBX5 (see all 14)
    OriGene ORF clones in mouse, rat for CBX5
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    GenScript: all cDNA clones in your preferred vector (see all 3): CBX5 (NM_012117)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CBX5
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CBX5
    Addgene plasmids for CBX5 
    Primer
    Products:
        
    OriGene qPCR primer pairs and template standards for CBX5
    OriGene qSTAR qPCR primer pairs in human, mouse for CBX5
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CBX5
      QuantiTect SYBR Green Assays in human, mouse, rat CBX5
      QuantiFast Probe-based Assays in human, mouse, rat CBX5

    Additional mRNA sequence: 

    AF147443.1 AK023520.1 AK055641.1 AK056315.1 AK095108.1 AK313506.1 BC006821.1 BC030149.2 
    BC047432.1 CR457418.1 L07515.1 S62077.1 U26311.1 

    Selected DOTS entries (see all 41):

    DT.214683  DT.100804605  DT.100809536  DT.318677  DT.121142656  DT.121142966  DT.100804583  DT.121142699 
    DT.97860793  DT.121142668  DT.456048  DT.100829089  DT.95080323  DT.121142801  DT.95080322  DT.121142640 
    DT.121142776  DT.209038  DT.121643376  DT.100755172  DT.121142961  DT.75148726  DT.91938437  DT.95184911 

    Selected AceView cDNA sequences (see all 643):

    BC006821 BU856970 BM799194 AI051850 BG779641 AI679587 AA649040 BU521854 
    AI250835 BI793277 BM709135 BM798038 AA343953 BM842514 AI859571 BM563047 
    AW131550 BM468228 CR605673 BQ938090 AK095108 AA491219 BM683032 BM479972 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for CBX5    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d ^ 6 ^ 7
    SP1:                                                                              
    SP2:              -     -     -     -                                             
    SP3:                                                                              
    SP4:                                                                              
    SP5:              -                                                               


    ECgene alternative splicing isoforms for CBX5

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

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    CBX5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TCTGCTTTTG
    CBX5 Expression
    About this image


    CBX5 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 8) fully expand
     
     Brain (Nervous System)    fully expand to see all 5 entries
             Medulla Oblongata
     
     Neural Tube (Nervous System)    fully expand to see all 3 entries
             Metencephalon
     
     Gut Tube (Gastrointestinal Tract)
             Foregut
     
     Bone (Muscoskeletal System)
             Bone Marrow
     
     Trophoblast (Extraembryonic Tissues)
             Trophoblast Cells Trophoblast
    CBX5 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CBX5 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.349283
        Pathway & Disease-focused RT2 Profiler PCR Arrays including CBX5: 
              HIV Host Response in human mouse rat
              Polycomb & Trithorax Complexes in human mouse rat
              Epigenetic Chromatin Remodeling Factors in human mouse rat

    Primer
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals.

    Orthologs for CBX5 gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cbx51 , 5 chromobox homolog 5 (Drosophila HP1a)5
    chromobox 51
    92.32(n)1
    97.91(a)1
      15 (58.34 cM)5
    124191  NM_007626.31  NP_031652.11 
     1031915445 
    chicken
    (Gallus gallus)
    Aves --
    Uncharacterized protein
    89(a)
    many ↔ many
    JH375576.1(3470-4650)
    lizard
    (Anolis carolinensis)
    Reptilia CBX56
    chromobox homolog 5
    91(a)
    1 ↔ 1
    2(71299394-71328158)
    African clawed frog
    (Xenopus laevis)
    Amphibia cbx5-prov2 chromobox homolog 5 (HP1 alpha homolog, Drosophila) 80.63(n)    BC054962.1 
    zebrafish
    (Danio rerio)
    Actinopterygii cbx51 chromobox homolog 5 (HP1 alpha homolog, Drosophila) 67.4(n)
    73.77(a)
      563396  NM_001080184.1  NP_001073653.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta HP1b3 chromatin binding 52(a)   8C7   --
    worm
    (Caenorhabditis elegans)
    Secernentea hpl-16
    Protein HPL-1 (hpl-1) mRNA, complete cds
    30(a)
    1 → many
    X(13245390-13247044) WBGene00001995


    ENSEMBL Gene Tree for CBX5 (if available)
    TreeFam Gene Tree for CBX5 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CBX5 gene
    CBX32  CBX12  
    16 SIMAP similar genes for CBX5 using alignment to 3 protein entries:     CBX5_HUMAN (see all proteins):
    CBX4    CBX1    CBX8    CBX3    CBX2    CDYL2
    CDYL    SUV39H2    CBX6    CBX7    CDY1    CDY1B
    CDY2A    CDY2B    MPHOSPH8    SUV39H1

    Find genes that share paralogs with CBX5           About GenesLikeMe


    3 Pseudogenes.org Pseudogenes for CBX5
    PGOHUM00000237585 PGOHUM00000237674 PGOHUM00000235190


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for CBX5 (see all 750)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 12 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1129475551,2
    C--51694506(+) TTACAG/AGCATG 1 -- us2k11Minor allele frequency- A:0.50WA 2
    rs111708531,2
    C,F,H--54624328(+) ACAAAT/ATCACA 3 -- ds50016Minor allele frequency- A:0.02NS EA NA 530
    rs171094751,2
    C,F,H--54624374(+) TGTGGT/CATTCC 3 -- ds500119Minor allele frequency- C:0.23NA EA NS 2150
    rs1909339871,2
    --54624461(+) ATTAGA/GAGCAG 3 -- ds50010--------
    rs1466876701,2
    --54624503(+) CTGAAC/TCAGTT 3 -- ds50010--------
    rs733210271,2
    C--54624597(+) GAGACC/AAATAA 3 -- ds50012Minor allele frequency- A:0.04WA 120
    rs1839628211,2
    --54624664(+) TGACAC/TTCCAG 3 -- ds50010--------
    rs740899541,2
    C,F--54627373(+) GTCCCC/TACATA 3 -- ut312Minor allele frequency- T:0.07WA 120
    rs1392226421,2
    --54627488(+) GGCACA/GTGGAT 3 -- ut310--------
    rs1856203541,2
    --54627594(+) GTGTGC/TGCCTG 3 -- ut310--------

    HapMap Linkage Disequilibrium report for CBX5 (54624724 - 54673915 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for CBX5:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv509467CNV Insertion20534489
    nsv832419CNV Loss17160897
    esv25123CNV Loss19812545
    nsv832420CNV Loss17160897

    Human Gene Mutation Database (HGMD): CBX5
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CBX5
    DNA2.0 Custom Variant and Variant Library Synthesis for CBX5

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 604478    OMIM disorders: --


    Find genes that share disorders with CBX5           About GenesLikeMe

    Selected Novoseek inferred disease relationships for CBX5 gene (see all 13)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    icf syndrome 69 2 15470359 (2)
    promyelocytic leukemia 34.8 2 15470359 (1), 12840071 (1)
    carcinoma embryonal 25.5 1 15342492 (1)
    breast cancer metastatic 10.2 1 16648629 (1)
    myeloid leukemia 6.76 1 16569592 (1)
    tumors 3.79 2 11507703 (1), 16892059 (1)
    leukemia 3.33 2 15507473 (1), 16569592 (1)
    retinoblastoma 3.05 1 11484059 (1)
    autoimmune diseases 0 1 9169582 (1)
    breast cancer 0 11 19566924 (3), 16648629 (3), 12151603 (2), 16051232 (1)


    Export disorders for CBX5 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for CBX5 gene, integrated from 10 sources (see all 279):
    (articles sorted by number of sources associating them with CBX5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Interaction between an integral protein of the nuclear envelope inner membrane and human chromodomain proteins homologous to Drosophila HP1. (PubMed id 8663349)1, 2, 3, 9 Ye Q. and Worman H.J. (J. Biol. Chem. 1996)
    2. ASXL1 represses retinoic acid receptor-mediated transcription through associating with HP1 and LSD1. (PubMed id 19880879)1, 2, 9 Lee S.W.... Um S.J. (J. Biol. Chem. 2010)
    3. Localization and phosphorylation of HP1 proteins during the cell cycle in mammalian cells. (PubMed id 10460410)1, 2, 9 Minc E.... Buendia B. (Chromosoma 1999)
    4. In vivo HP1 targeting causes large-scale chromatin condensation and enhanced histone lysine methylation. (PubMed id 15899859)1, 2, 9 Verschure P.J.... van Driel R. (Mol. Cell. Biol. 2005)
    5. Human BAHD1 promotes heterochromatic gene silencing. (PubMed id 19666599)1, 2, 9 Bierne H.... Cossart P. (Proc. Natl. Acad. Sci. U.S.A. 2009)
    6. Common properties of nuclear protein SP100 and TIF1alpha chromatin factor: role of SUMO modification. (PubMed id 11313457)1, 2, 9 Seeler J.-S.... Dejean A. (Mol. Cell. Biol. 2001)
    7. Recognition and specificity determinants of the human cbx chromodomains. (PubMed id 21047797)1, 2 Kaustov L.... Arrowsmith C.H. (J. Biol. Chem. 2011)
    8. Human POGZ modulates dissociation of HP1alpha from mitotic chromosome arms through Aurora B activation. (PubMed id 20562864)1, 2 Nozawa R.S.... Obuse C. (Nat. Cell Biol. 2010)
    9. Lamin A rod domain mutants target heterochromatin protein 1alpha and beta for proteasomal degradation by activation of F-box protein, FBXW10. (PubMed id 20498703)1, 2 Chaturvedi P. and Parnaik V.K. (PLoS ONE 2010)
    10. JAK2 phosphorylates histone H3Y41 and excludes HP1alpha from chromatin. (PubMed id 19783980)1, 2 Dawson M.A.... Kouzarides T. (Nature 2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 23468 HGNC: 1555 AceView: CBX5 Ensembl:ENSG00000094916 euGenes: HUgn23468
    ECgene: CBX5 H-InvDB: CBX5

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for CBX5 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for CBX5 gene:
    Search GeneIP for patents involving CBX5

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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