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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

HIST2H2BC Gene

pseudogene   GIFtS: 26
GCID: GC01M149821

Histone Cluster 2, H2bc (Pseudogene)

(Previous names: histone 2, H2bc, histone cluster 2, H2bc)
  Search for HIST2H2BC
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3.2

Aliases
Histone Cluster 2, H2bc (Pseudogene)1 2
H2B/t2 3
Histone 2, H2bc1
Histone Cluster 2, H2bc1
HIST2H2BD2
Histone H2B.T3

External Ids:    HGNC: 205161   Entrez Gene: 3378732   Ensembl: ENSG000002038197   UniProtKB: Q6DN033   
ORGUL members:    fRNAdb10:FR083303      
NONCODE14:n335544 n410024      
RNAdb15:EVF18972    

Export aliases for HIST2H2BC gene to outside databases

Previous GC identifers: GC01U900036 GC01M147038 GC01M146635 GC01M148089 GC01M148090 GC01M148091 GC01P121197


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for HIST2H2BC Gene: 
HIST2H2BC (histone cluster 2, H2bc (pseudogene)) is a pseudogene, and is affiliated with the lncRNA class.

UniProtKB/Swiss-Prot: H2B2C_HUMAN, Q6DN03
Function: Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA
accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role
in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is
regulated via a complex set of post-translational modifications of histones, also called histone code, and
nucleosome remodeling



fRNAdb sequence ontology for HIST2H2BC:
nc_conserved_region - Non-coding region of sequence similarity by descent from a common ancestor.

View fRNAdb secondary structures for HIST2H2BC

(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004487.19  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for HIST2H2BC
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for HIST2H2BC

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HIST2H2BC


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

Entrez Gene cytogenetic band: 1q21.2   Ensembl cytogenetic band:  1q21.2   HGNC cytogenetic band: 1q21.2

HIST2H2BC Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HIST2H2BC gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M149821:  view genomic region     (about GC identifiers)

Start:
149,821,759 bp from pter      End:
149,822,340 bp from pter
Size:
582 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for HIST2H2BC

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
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About This Section

UniProtKB/Swiss-Prot: H2B2C_HUMAN, Q6DN03 (See protein sequence)
Recommended Name: Putative histone H2B type 2-C  
Size: 193 amino acids; 21472 Da
Subunit: The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one
H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA
Subcellular location: Nucleus. Chromosome
Miscellaneous: The mouse orthologous protein seems not to exist
Caution: Could be the product of a pseudogene. In contrast to other H2B histones, it does not contain the
conserved residue in C-terminus that is the target of monoubiquitination
Secondary accessions: B7Z677

Explore the universe of human proteins at neXtProt for HIST2H2BC: NX_Q6DN03

Explore proteomics data for HIST2H2BC at MOPED 

Post-translational modifications:

  • UniProtKB: Phosphorylation at Ser-37 (H2BS36ph) by AMPK in response to stress promotes transcription (By similarity).
    Phosphorylated on Ser-15 (H2BS14ph) by STK4/MST1 during apoptosis; which facilitates apoptotic chromatin
    condensation. Also phosphorylated on Ser-15 in response to DNA double strand breaks (DSBs), and in correlation
    with somatic hypermutation and immunoglobulin class-switch recombination
  • UniProtKB: Crotonylation (Kcr) is specifically present in male germ cells and marks testis-specific genes in post-meiotic
    cells, including X-linked genes that escape sex chromosome inactivation in haploid cells. Crotonylation marks
    active promoters and enhancers and confers resistance to transcriptional repressors. It is also associated with
    post-meiotically activated genes on autosomes
  • View neXtProt modification sites for NX_Q6DN03

  • HIST2H2BC Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    HIST2H2BC Protein Expression

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    HIST: Histones / Replication-dependent

    3 InterPro protein domains:
     IPR009072 Histone-fold
     IPR000558 Histone_H2B
     IPR007125 Histone_core_D

    Graphical View of Domain Structure for InterPro Entry Q6DN03

    ProtoNet protein and cluster: Q6DN03

    UniProtKB/Swiss-Prot: H2B2C_HUMAN, Q6DN03
    Similarity: Belongs to the histone H2B family


    HIST2H2BC for domains           About GeneDecksing


    (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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: H2B2C_HUMAN, Q6DN03
    Function: Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA
    accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role
    in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is
    regulated via a complex set of post-translational modifications of histones, also called histone code, and
    nucleosome remodeling

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    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for HIST2H2BC

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
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    Browse Tocris compounds for HIST2H2BC (H2B2C)

    Search CenterWatch for drugs/clinical trials and news about HIST2H2BC

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
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    About This Section
    1 fRNAdb Secondary structure:


    Unigene Cluster for HIST2H2BC:

    Histone cluster 2, H2bc (pseudogene)
    Hs.666643  [show with all ESTs]
    Unigene Representative Sequence: AK299891
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000498492(uc021oxz.1)
    miRNA
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    Additional mRNA sequence: 

    AK299891.1 BC071638.1 NR_036461.1 

    2 DOTS entries:

    DT.87046136  DT.97801411 

    11 AceView cDNA sequences:

    AI016731 BE886163 BC071638 AW296870 BE245642 BE207250 AL043446 BG029126 
    AA010281 N56740 N27050 

    GeneLoc Exon Structure


    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    HIST2H2BC expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AACTCCTTCC
    HIST2H2BC Expression
    About this image


    See HIST2H2BC Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.666643
        SABiosciences Custom PCR Arrays for HIST2H2BC
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    In Situ
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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)
    About This Section
      --

    ENSEMBL Gene Tree for HIST2H2BC (if available)
    TreeFam Gene Tree for HIST2H2BC (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for HIST2H2BC gene
    18/20 SIMAP similar genes for HIST2H2BC using alignment to 1 protein entry:     H2B2C_HUMAN(see all similar genes):
    HIST2H2BD    HIST1H2BB    HIST1H2BC    HIST1H2BD    HIST1H2BE    HIST1H2BF
    HIST1H2BG    HIST1H2BH    HIST1H2BI    HIST1H2BJ    HIST1H2BK    HIST1H2BM
    HIST1H2BN    HIST1H2BO    HIST2H2BE    HIST3H2BB    H2BFS    HIST1H2BL

    HIST2H2BC for paralogs           About GeneDecksing



    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section
    Structural Variations
         Database of Genomic Variants (DGV) 10/12 variations for HIST2H2BC (see all 12):    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv469694CNV Loss16826518
    nsv428235CNV Gain18775914
    nsv831525CNV Gain17160897
    esv2750807CNV Gain17911159
    essv23032CNV CNV17122850
    dgv117e1CNV Complex17122850
    dgv125e1CNV Complex17122850
    dgv123e1CNV Complex17122850
    nsv499132OTHER Inversion21111241
    esv1007634OTHER Inversion20482838

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
      --

    (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)
    About This Section

    PubMed articles for HIST2H2BC gene, integrated from 9 sources (see all 12):
    (articles sorted by number of sources associating them with HIST2H2BC)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Functional characterization of a human histone gene cluster duplication. (PubMed id 15527963)1, 2, 3 Braastad C.D....Stein G.S. (2004)
    2. The human and mouse replication-dependent histone genes. (PubMed id 12408966)1, 2, 3 Marzluff W.F....Maltais L.J. (2002)
    3. Inhibition of core histones acetylation by carcinogenic nickel(II). (PubMed id 16283522)1, 2 Golebiowski F. and Kasprzak K.S. (2005)
    4. Apoptotic phosphorylation of histone H2B is mediated by mammalian sterile twenty kinase. (PubMed id 12757711)1, 2 Cheung W.L.... Allis C.D. (2003)
    5. Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification. (PubMed id 21925322)2 Tan M.... Zhao Y. (2011)
    6. Identification of SUMOylated proteins in neuroblastoma cells after treatment with hydrogen peroxide or ascorbate. (PubMed id 21110914)1 Grant M.M. (2010)
    7. Birth-and-death long-term evolution promotes histone H2B variant diversification in the male germinal cell line. (PubMed id 20194426)1 GonzA!lez-Romero R....EirA-n-LA^pez J.M. (2010)
    8. Substrate and functional diversity of lysine acetylation revealed by a proteomics survey. (PubMed id 16916647)1 Kim S.C.... Zhao Y. (2006)
    9. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    10. Functional diversity among putative E2 isozymes in th e mechanism of ubiquitin-histone ligation. (PubMed id 2843516)1 Haas A.L....Jackson V.E. (1988)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    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)
    About This Section
    Entrez Gene: 337873 HGNC: 20516 AceView: HIST2H2BC Ensembl:ENSG00000203819 euGenes: HUgn337873
    ECgene: HIST2H2BC H-InvDB: HIST2H2BC

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for HIST2H2BC Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for HIST2H2BC gene:
    Search GeneIP for patents involving HIST2H2BC

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



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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