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HIST2H2BA Gene

pseudogene   GIFtS: 17
GCID: GC01P120916

Histone Cluster 2, H2ba (Pseudogene)

(Previous names: histone 2, H2ba, histone cluster 2, H2ba)
  Search for HIST2H2BA
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
Histone Cluster 2, H2ba (Pseudogene)1 2
Histone 2, H2ba1
Histone Cluster 2, H2ba1

External Ids:    HGNC: 205601   Entrez Gene: 3378752   Ensembl: ENSG000002233457   

Export aliases for HIST2H2BA gene to outside databases

Previous GC identifers: GC01U900038 GC01M147000 GC01P120618 GC01P120707 GC01P120907 GC01P120909 GC01P120912


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for HIST2H2BA Gene:
HIST2H2BA (histone cluster 2, H2ba (pseudogene)) is a pseudogene.


(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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Regulatory elements:
   Search for regulatory transcription factor binding sites for HIST2H2BA
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for HIST2H2BA

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat HIST2H2BA


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

Entrez Gene cytogenetic band: 1p11.2   Ensembl cytogenetic band:  1p11.2   HGNC cytogenetic band: 1p11.2

HIST2H2BA Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HIST2H2BA gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P120916:  view genomic region     (about GC identifiers)

Start:
120,906,028 bp from pter      End:
120,915,073 bp from pter
Size:
9,046 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for HIST2H2BA

(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: --


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

  --

(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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Animal Models:
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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  --

(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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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for HIST2H2BA
Interactions:

    Search GeneGlobe Interaction Network for HIST2H2BA

(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 Tocris compounds for HIST2H2BA



(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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2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000430394(uc001eio.2) ENST00000412169
miRNA
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9 AceView cDNA sequences:

CF887452 CF890852 BQ880825 CB321631 BE276642 BF026575 BF025898 AI660196 
BF856462 

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™, 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)
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HIST2H2BA expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
HIST2H2BA Expression
About this image


HIST2H2BA expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 
 Blood (Hematopoietic System)
         Granulocytes Peripheral Blood
HIST2H2BA Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
    Custom PCR Arrays for HIST2H2BA
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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)
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  --

ENSEMBL Gene Tree for HIST2H2BA (if available)
TreeFam Gene Tree for HIST2H2BA (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(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 HIST2H2BA (see all 129)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2003578651,2
C--120904210(+) ACATA-/TTTTTT 1 -- us2k10--------
rs1384880281,2
--120904382(+) AAAATA/CTCTGT 1 -- us2k10--------
rs2014364451,2
F--120904647(+) ACTGCC/TTAGAC 1 -- us2k11Minor allele frequency- T:0.00EU 593
rs27910631,2
C,F--120904791(-) CGGTGC/TGGCTT 1 -- us2k13Minor allele frequency- T:0.25NA WA EU 409
rs1812126141,2
--120904802(+) CTACCA/GGCCGG 1 -- us2k10--------
rs618040211,2
C,F--120904830(+) AGATCC/TGGCGC 1 -- us2k11Minor allele frequency- T:0.10EU 540
rs1850393041,2
--120904907(+) CAGGAC/GTTTAA 1 -- us2k10--------
rs1170133401,2
C,F--120904948(+) GACGGC/TGCTGG 1 -- us2k11Minor allele frequency- T:0.02EA 120
rs27888221,2
C,A,H--120905064(-) GCGGCT/GGACCA 1 -- us2k12Minor allele frequency- G:0.00NA 4
rs618040221,2
C,F--120905120(+) AAAGGA/CTCTTT 1 -- us2k11Minor allele frequency- C:0.11EU 581

HapMap Linkage Disequilibrium report for HIST2H2BA (120906028 - 120915073 bp)

Structural Variations
     Database of Genomic Variants (DGV) 10 variations for HIST2H2BA:    About this table    
Variant IDTypeSubtypePubMed ID
nsv2621CNV Insertion18451855
dgv338n71CNV Gain21882294
dgv337n71CNV Gain21882294
nsv872191CNV Gain21882294
nsv10772CNV Gain18304495
nsv524681CNV Gain19592680
nsv872181CNV Gain21882294
esv26241CNV Gain+Loss19812545
dgv97e1CNV Complex17122850
dgv94e1CNV Complex17122850

Site Specific Mutation Identification with PCR Assays
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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  --

(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 HIST2H2BA gene integrated from 10 sources:
(articles sorted by number of sources associating them with HIST2H2BA)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The human and mouse replication-dependent histone genes. (PubMed id 12408966)1, 3 Marzluff W.F.... Maltais L.J. (Genomics 2002)
  2. 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. (Mol. Biol. Evol. 2010)
  3. NIR is a novel INHAT repressor that modulates the transcriptional activity of p53. (PubMed id 16322561)1 Hublitz P.... Schule R. (Genes Dev. 2005)
  4. Menin associates with a trithorax family histone methyltransferase complex and with the hoxc8 locus. (PubMed id 14992727)1 Hughes C.M.... Meyerson M. (Mol. Cell 2004)
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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)
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Entrez Gene: 337875 HGNC: 20560 AceView: HIST2H2BA Ensembl:ENSG00000223345 euGenes: HUgn337875
ECgene: HIST2H2BA H-InvDB: HIST2H2BA

(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 HIST2H2BA 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 HIST2H2BA gene:
Search GeneIP for patents involving HIST2H2BA

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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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