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H2AFJ Gene

protein-coding   GIFtS: 47

GC12P014818
H2A histone family, member J
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
FLJ10903 1, 2
FLJ52230 2
H2AJ 2
H2a/j 3
MGC921 1, 2
Descriptions
H2A histone family, member J 2
External Ids
HGNC: 144561
Entrez Gene: 557662
UniProtKB: Q9BTM13
Ensembl: ENSG000001113327
Search outside databases for aliases for H2AFJ gene

Previous GC identifers: GC12P014666 GC12P015072 GC12P014827

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

EntrezGene summary for H2AFJ:
Histones are basic nuclear proteins that are responsible for the nucleosome structure of the
chromosomal fiber in eukaryotes. Nucleosomes consist of approximately 146 bp of DNA wrapped around
a histone octamer composed of pairs of each of the four core histones (H2A, H2B, H3, and H4). The
chromatin fiber is further compacted through the interaction of a linker histone, H1, with the DNA
between the nucleosomes to form higher order chromatin structures. This gene is located on
chromosome 12 and encodes a variant H2A histone. The protein is divergent at the C-terminus
compared to the consensus H2A histone family member. [provided by RefSeq]

UniProtKB/Swiss-Prot: H2AJ_HUMAN, Q9BTM1
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

Gene Wiki entry for H2AFJ

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the H2AFJ gene  

Entrez Gene cytogenetic band: 12p12   Ensembl cytogenetic band:  12p12.3   HGNC cytogenetic band: 12p12.3

H2AFJ Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12P014818:     (about GC identifiers)

Start:
14,818,537 bp from pter
End:
14,822,203 bp from pter
Size:
3,667 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000012.10  NT_009714.16  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: H2AJ_HUMAN, Q9BTM1 (See protein sequence)
Recommended Name: Histone H2A.J  
Size: 129 amino acids; 14019 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 (By similarity)
Secondary accessions: Q9NV63
Alternative splicing: 2 isoforms:  Q9BTM1-1   Q9BTM1-2   

Post-translational modifications:

  • Monoubiquitination of Lys-120 gives a specific tag for epigenetic transcriptional repression (By
    similarity)1
  • Phosphorylation on Ser-2 is enhanced during mitosis. Phosphorylation on Ser-2 directly represses
    transcription (By similarity)1


  • REFSEQ proteins: NP_808760.1  

    ENSEMBL proteins: 
    ENSP00000228929 ENSP00000373730 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse Abcam for Recombinant Proteins
    Browse Abnova for Human Recombinant Proteins
                  OriGene Purified Recombinant Human Protein: H2AFJ 

    3 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000786 nucleosome IEA--
    GO:0005634 nucleus IEA--
    GO:0005694 chromosome IEA--
    About this table

    Antibodies for H2AFJ: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse Antibodies at Sigma-Aldrich
    Browse R&D Systems for Antibodies
    Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Search Novus for antibodies for H2AFJ

    Assays for H2AFJ: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    3 InterPro domains/families:
     IPR007125 Histone_core_D
     IPR002119 Histone_H2A
     IPR009072 Histone-fold


       GeneDecks  H2AFJ for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q9BTM1

    ProtoNet protein and cluster: Q9BTM1

    1 Blocks protein family: IPB002119 Histone H2A

    UniProtKB/Swiss-Prot: H2AJ_HUMAN, Q9BTM1
    Similarity: Belongs to the histone H2A family

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Browse Invitrogen for RNAi
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (H2AFJ)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_177925

                  Applied Biosystems Silencer® siRNAs for H2AFJ

                  Sigma-Aldrich siRNA for H2AFJ  
                         Sigma-Aldrich shRNA for H2AFJ  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Browse Clone Ranger at Invitrogen for clones
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_177925
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_177925
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_018267 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_018267

    UniProtKB/Swiss-Prot: H2AJ_HUMAN, Q9BTM1
    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

    1 Gene Ontology (GO) molecular function term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677 DNA binding IEA--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


    1 Kegg Pathway  (Kegg details for H2AFJ):
     hsa05322 Systemic lupus erythematosus

       GeneDecks  H2AFJ for the pathways selected above  
    About GeneDecksing

    1 Gene Ontology (GO) biological process term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006334 nucleosome assembly IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for H2AFJ

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Browse Invitrogen for RNAi
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (H2AFJ)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_177925

                  Sigma-Aldrich siRNA for H2AFJ  
                         Sigma-Aldrich shRNA for H2AFJ  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_177925  

    REFSEQ mRNAs for H2AFJ gene: 

    NM_177925.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_177925  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_177925
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_177925
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_018267 

    Additional cDNA sequence: 

    AK303301.1 AL133626.1 

    4 DOTS entries:

    DT.317312  DT.442835  DT.40221155  DT.121130338 

    24/202 AceView cDNA sequences (see all 202 ):

    AI657138 CF130059 BQ011128 BC003602 AW614368 BM673012 BQ949135 BG164807 
    CR625218 CA426927 BU857464 AI826325 BE855619 AI051983 CD671508 AI089875 
    BQ011207 BP371955 BP371825 BQ636090 BF437356 CD671507 BM760307 AA641993 

    highest scoring ESTs for H2AFJ:

    AA641993 AA975581 AA975585 AA989504 AI051983 AI085976 AA136886 AA143420 AA416963 AA507753 

    Unigene Clusters for H2AFJ:

    H2A histone family, member J
    Hs.524280  [show with all ESTs], Hs.718660  [show with all ESTs]
    Unigene Representative Sequences: NM_177925, AL133626


    GeneLoc Exon Structure

    2 Ensembl transcripts including schematic representations:
    ENST00000228929  ENST00000389078  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    H2AFJ expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for H2AFJ

    1 / 2 / 3

    11 probe-sets matching H2AFJ gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    79412_at2, 3 U95-D 1 1.00 1.00 0.93 0.84 AL037735 0.60 1.00 0.82 1

    57175_at2, 3 U95-B 1 1.00 1.00 0.83 1.21 AI051983 0.80 1.00 0.91 1
    64194_at2, 3 U95-C 1 1.00 1.00 0.85 0.95 H14920 0.60 1.00 0.82 1

    228213_at2, 3 U133-B 1 1.00 1.00 -- -- AW241813 0.40 1.00 0.76 1

    220936_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_018267 0.40 1.00 0.76 1

    224301_x_at2, 3 U133-B 10 1.00 0.81 -- -- BC003602 0.60 1.00 0.82 1

    225245_x_at2, 3 U133-B 10 1.00 0.81 -- -- BG386566 0.60 1.00 0.82 1

    228213_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    220936_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    224301_x_at2 U133Plus2 10 1.00 0.81 -- -- -- -- -- -- --

    225245_x_at2 U133Plus2 10 1.00 0.81 -- -- -- -- -- -- --
    GeneDecks  H2AFJ for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: GAGGGCCGGT

    SOURCE GeneReport for Unigene clusters: Hs.524280 Hs.718660
    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for H2AFJ gene from 5/12 species (see all 12 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    LOC4866691   -- similar to H2A histone family, member J isoform 2 92.51(n)
    99.22(a)
    486669  XM_543796.2  XP_543796.1 
    chimpanzee
    (Pan troglodytes)
    LOC7365291   -- similar to histone H2A.1 83.98(n)
    95.35(a)
    736529  XM_001137950.1  XP_001137950.1 
    cow
    (Bos taurus)
    LOC5241761   -- similar to histone cluster 1, H2ag 84.5(n)
    95.35(a)
    524176  XM_602496.3  XP_602496.2 
    rat
    (Rattus norvegicus)
    H2afj1   -- H2A histone family, member J 86.05(n)
    98.45(a)
    690795  XM_001075643.1  XP_001075643.1 
    mouse
    (Mus musculus)
    H2afj1, 5 65
    H2A histone family, member J1, 5 87.08(n)1
    98.45(a)1
    2324401  NM_177688.31  NP_808356.11 
     AK0537555  AV4983515  (see all 8)
    About this table        Species with no ortholog for H2AFJ

    ENSEMBL Gene Tree for H2AFJ
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for H2AFJ gene
    HIST2H2AB2  HIST1H4A2  HIST1H2AE2  HIST1H2AB2  

    Pseudogenes
    1 related pseudogene


    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/49 NCBI SNPs in H2AFJ are shown (see all 49 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 42)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 12 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs37899991,2
    A,C,F,H14821322(+) TTTACG/TGGCTG 1 -- ut3112Minor allele frequency- T:0.47EU EA WA NA 1052
    rs23036121,2
    C,F,H14819450(-) CTCACC/TGCACC 1 -- ut314Minor allele frequency- T:0.03EU EA WA 404
    rs37482901,2
    C,F,H14820988(+) TTTGAC/TATTTG 1 -- ut318Minor allele frequency- T:0.17EA NA EU WA 1854
    rs110561831,2
    C,F,H14817771(+) TTACAA/GAGAGA 1 -- ng515Minor allele frequency- G:0.26EA WA MN 646
    rs66451,2
    A,C,F14819092(+) GCTCCC/GCCAGC 1 -- ut312Minor allele frequency- G:0.10MN 372
    rs37482891,2
    C,F,H14820934(+) AACTAC/GTACTC 1 -- ut318Minor allele frequency- G:0.09EA NA EU WA 2040
    rs79652241,2
    A,F,H14817509(+) ATTTGC/TTTTAC 1 -- ng514Minor allele frequency- T:0.00EU EA WA 414
    rs22320371,2
    F,H14818102(+) TTGTAT/CAAGAA 1 -- ng514Minor allele frequency- C:0.12EU EA WA 388
    rs21951991,2
    A,C14819261(-) ATCCGA/GCATGT 1 -- ut310--------
    rs79691591,2
    A,C14819283(+) AGGGGG/TGCGAC 1 -- ut31 trp30--------
    About this table

    HapMap Linkage Disequilibrium images for H2AFJ (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

      --

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/12 PubMed articles for H2AFJ gene (see all 12 ):
    (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, and/or H-InvDB)
    About This Section

    Entrez Gene: 55766 HGNC: 14456 AceView: H2AFJ Ensembl:ENSG00000111332 euGenes: HUgn55766
    ECgene: H2AFJ H-InvDB: H2AFJ
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for H2AFJ:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for H2AFJ Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for H2AFJ Browse small molecules at Sigma-Aldrich
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