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JARID2 Gene

protein-coding   GIFtS: 57

GC06P015354
jumonji, AT rich interactive domain 2
(Previous names: jumonji (mouse) homolog, Jumonji, AT rich interactive domain 2 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: JMJ)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
JMJ 2, 3
OTTHUMP00000016058 2
Descriptions
Jumonji/ARID domain-containing protein 2 3
jumonji (mouse) homolog 1
jumonji homolog 2
jumonji, AT rich interactive domain 2 1, 2
jumonji, AT rich interactive domain 2 protein 2
jumonji-like protein 2
External Ids
HGNC: 61961
Entrez Gene: 37202
UniProtKB: Q928333
Ensembl: ENSG000000080837
Search outside databases for aliases for JARID2 gene

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

EntrezGene summary for JARID2:
This gene is an ortholog of the mouse jumonji gene, which encodes a nuclear protein essential for
mouse embryogenesis, including neural tube formation. Overexpression of mouse jumonji negatively
regulates cell proliferation. The jumonji proteins contain a DNA-binding domain, called an AT-rich
interaction domain (ARID), and share regions of similarity with human retinoblastoma-binding
protein-2 and the human SMCX protein. [provided by RefSeq]

UniProtKB/Swiss-Prot: JARD2_HUMAN, Q92833
Function: Required for neural tube formation. Essential for normal heart development and function.
Acts as a transcriptional repressor of ANF by binding to both GATA4 and NKX2-5 and repressing
their transcriptional activator activities. Participates in the negative regulation of cell
proliferation signaling (By similarity)

Gene Wiki entry for JARID2

(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 JARID2 gene  

Entrez Gene cytogenetic band: 6p24-p23   Ensembl cytogenetic band:  6p23   HGNC cytogenetic band: 6p24-p23

JARID2 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 6         GeneLoc Exon Structure

GeneLoc location for GC06P015354:     (about GC identifiers)

Start:
15,354,506 bp from pter
End:
15,630,232 bp from pter
Size:
275,727 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000006.10  NT_007592.14  
(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: JARD2_HUMAN, Q92833 (See protein sequence)
Recommended Name: Protein Jumonji  
Size: 1246 amino acids; 138734 Da
Subunit: Interacts with the N-terminal region of GATA4 and the C-terminal region of the NKX2-5
homeobox and represses their ability to activate transcription of ANF (By similarity)
Subcellular location: Nucleus (By similarity)
Sequence caution: Sequence=AAC50822.1; Type=Frameshift; Positions=1233;
Secondary accessions: Q5U5L5

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_004964.2  

    ENSEMBL proteins: 
    ENSP00000380478 ENSP00000341280 


    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
    Recombinant Proteins from Abcam (Jarid2)
    Human Recombinant Proteins from Abnova (JARID2)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622 intracellular IEA--
    GO:0005634 nucleus IEA--
    About this table

    Antibodies for JARID2: 
    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
    Antibodies from Abcam (Jarid2), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (JARID2)
    Novus Biologicals Antibodies for JARD2

    Assays for JARID2: 
    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

    5 InterPro domains/families:
     IPR003347 TF_JmjC_AAH
     IPR003349 TF_JmjN
     IPR004198 Znf_C5HC2
     IPR013129 TF_JmjC
     IPR001606 ARID


       GeneDecks  JARID2 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q92833

    ProtoNet protein and cluster: Q92833

    4 Blocks protein families:
    IPB001606 ARID (AT-rich interaction domain) protein
    IPB003347 Transcription factor jumonji
    IPB003349 Transcription factor jumonji
    IPB004198 Zn-finger


    UniProtKB/Swiss-Prot: JARD2_HUMAN, Q92833
    Similarity: Contains 1 ARID domain
    Similarity: Contains 1 JmjC domain
    Similarity: Contains 1 JmjN domain

    (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:
    Invitrogen RNAi Products for gene knock-down (JARID2)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (JARID2)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004973

                  Applied Biosystems Silencer® siRNAs for JARID2

                  Sigma-Aldrich siRNA and siRNA Panels for JARID2  
                         Sigma-Aldrich shRNA for JARID2  
                         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_004973
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_004973
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_004973 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_004973

    UniProtKB/Swiss-Prot: JARD2_HUMAN, Q92833
    Function: Required for neural tube formation. Essential for normal heart development and function.
    Acts as a transcriptional repressor of ANF by binding to both GATA4 and NKX2-5 and repressing
    their transcriptional activator activities. Participates in the negative regulation of cell
    proliferation signaling (By similarity)

    13 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Jarid2):

    embryogenesisgrowth/sizehematopoietic systemhomeostasis/metabolism
    immune systemlethality-prenatal/perinatalliver/biliary systemmusclenervous system
    no phenotypic analysisrespiratory systemskeleton

    3 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677 DNA binding IEA--
    GO:0005515 protein binding IEA--
    GO:0016564 transcription repressor activity 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 Sigma-Aldrich "Your Favorite Gene" Pathway for  JARID2  (Your Favorite Gene powered by Ingenuity) 
     Role of Oct4 in Mammalian Embryonic Stem Cell Pluripotency

       GeneDecks  JARID2 for the pathways selected above  
    About GeneDecksing

     Gene Network CentralTM Interacting Genes and Proteins Network for  JARID2 


    5/6 Interacting proteins for JARID2 (ENSP000003412803) via UniProtKB, MINT, and/or STRING (see all 6 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CCND1ENSP000002275073STRING (score=.969)
    ZNF496ENSP000002947533STRING (score=.943)
    RB1ENSP000002671633STRING (score=.927)
    GATA4ENSP000003344583STRING (score=.772)
    NKX2-5ENSP000003277583STRING (score=.772)
    About this table

    5/8 Gene Ontology (GO) biological process terms (links to tree view) (see all 8 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122 negative regulation of transcription from RNA polymerase II promoter IEA--
    GO:0001889 liver development IEA--
    GO:0006350 transcription IEA--
    GO:0007275 multicellular organismal development IEA--
    GO:0007417 central nervous system development TAS8894700
    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 JARID2

    (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:
    Invitrogen RNAi Products for gene knock-down (JARID2)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (JARID2)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004973

                  Sigma-Aldrich siRNA and siRNA Panels for JARID2  
                         Sigma-Aldrich shRNA for JARID2  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_004973  

    REFSEQ mRNAs for JARID2 gene: 

    NM_004973.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_004973  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_004973
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_004973
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_004973 

    Additional cDNA sequence: 

    AF401209.1 AK126552.1 AK292861.1 AK299349.1 AK302624.1 AK303610.1 BC046184.1 BC046246.1 
    CR590032.1 U57592.1 

    10 DOTS entries:

    DT.444424  DT.40207464  DT.102829683  DT.75188233  DT.95276726  DT.75107260  DT.95258682  DT.121313238 
    DT.40131726  DT.97785783 

    24/215 AceView cDNA sequences (see all 215 ):

    BE218837 AI752994 BU187019 BX279637 BF222387 AI653290 AI911157 BM542826 
    BG981124 AW513927 AW016429 AF401209 CD676149 AA987384 CD652986 AI365114 
    AL041595 AI680664 CA435807 BM968533 BM798129 BM272468 BF431048 NM_004973 

    highest scoring ESTs for JARID2:

    AA142951 AA150661 AA194045 AA354817 AA479986 AA564451 AA653601 AA810151 AA910566 AA931169 

    Unigene Cluster for JARID2:

    Jumonji, AT rich interactive domain 2
    Hs.630189  [show with all ESTs]
    Unigene Representative Sequence: NM_004973


    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for JARID2

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b · 14c ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19
    SP1:                                                  -           -                       -           -                       -               
    SP2:                                                                                                                                          
    SP3:                                                                                      -                                                   
    SP4:                                                                                                                                          

    About this scheme

    ECgene alternative splicing isoforms for JARID2

    2 Ensembl transcripts including schematic representations:
    ENST00000397311  ENST00000341776  
    (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

    JARID2 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for JARID2

    1 / 2 / 3

    7 probe-sets matching JARID2 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    34782_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 AL021938 0.20 1.00 0.72 1

    203298_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_004973 0.60 1.00 0.82 1

    203297_s_at2, 3 U133-A 2 1.00 0.95 -- -- BG029530 0.60 1.00 0.82 1

    240674_at2, 3 U133-B 1 0.82 1.00 -- -- AW445218 0.20 1.00 0.72 1

    203298_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    203297_s_at2 U133Plus2 2 1.00 0.95 -- -- -- -- -- -- --

    240674_at2 U133Plus2 1 0.82 1.00 -- -- -- -- -- -- --
    GeneDecks  JARID2 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: TGGTTTATTG

    SOURCE GeneReport for Unigene cluster: Hs.630189

    Expression variation in blood from EXPOLDB for JARID2

    UniProtKB/Swiss-Prot: JARD2_HUMAN, Q92833
    Tissue specificity: During embryogenesis, predominantly expressed in neurons and particularly in
    dorsal root ganglion cells

    (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 JARID2 gene from 5/10 species (see all 10 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    JARID21   -- jumonji, AT rich interactive domain 2 92.89(n)
    95.39(a)
    478729  XM_535895.2  XP_535895.2 
    chimpanzee
    (Pan troglodytes)
    JARID21   -- jumonji, AT rich interactive domain 2 99.46(n)
    99.52(a)
    462450  XM_001169912.1  XP_001169912.1 
    cow
    (Bos taurus)
    JARID21   -- jumonji, AT rich interactive domain 2 90.89(n)
    93.5(a)
    528253  XM_606667.3  XP_606667.3 
    mouse
    (Mus musculus)
    Jarid21, 5 13 (27.00 cM)5
    jumonji, AT rich interactive domain 21, 5 90.3(n)1
    93.25(a)1
    164681  NM_021878.21  NP_068678.11 
     AI3172565  AK0448885  (see all 24)
    chicken
    (Gallus gallus)
    JARID21   -- jumonji, AT rich interactive domain 2 83.06(n)
    87.48(a)
    420839  NM_001012862.1  NP_001012880.1 
    About this table        Species with no ortholog for JARID2

    ENSEMBL Gene Tree for JARID2
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for JARID2 gene
    KDM4D2  KDM4A2  KDM4C2  KDM4B2  

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


    10/1685 NCBI SNPs in JARID2 are shown (see all 1685 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 508)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 6 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs132018241,2
    A,C,F,H15628757(+) TTTTTG/TGTTTT 1 -- ut318Minor allele frequency- T:0.08EU EA WA 794
    rs38144521,2
    H15629615(+) AGCCTT/GTTTCT 1 -- ut31 trp34Minor allele frequency- G:0.00EU EA WA 416
    --
    rs10472151,2
    A15629554(+) AAAAAG/AAAAAA 1 -- ut311Minor allele frequency- A:0.00MN 184
    rs77685291,2
    H15630475(+) gagacG/Aacact 1 -- ng314Minor allele frequency- A:0.00EU EA WA 420
    rs7420991,2
    A,C,F,H,O15604641(-) ACGGCA/GGGCCC 1 P/P syn1 ese314Minor allele frequency- N:0.00MN EA NA EU WA 2322
    rs22352581,2
    A,C,F,H15621461(-) TGCCGT/CAGCTC 1 L/L syn1 ese36Minor allele frequency- C:0.34EA EU WA NA 1596
    rs119700761,2
    C,F,H15625394(+) AACGTC/TGTGTT 1 V/V syn1 ese35Minor allele frequency- T:0.01EU EA WA NA 490
    rs343266511,2
    C,F15482407(+) AAGAAT/CTCCCA 1 N/N syn11Minor allele frequency- C:0.05NA 78
    --
    rs77686211,2
    C15576855(+) GCCACC/GAACAA 1 T/T syn1 ese30--------
    rs14745871,2
    A,C,F,H,O15624688(-) TGGACG/ACCCTG 1 -- int18Minor allele frequency- A:0.11EU EA WA NA 2038
    About this table

    HapMap Linkage Disequilibrium images for JARID2 (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

    OMIM: 601594

    Human Genome Epidemiology Navigator: JARID2 (1 document)

    (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

    10/15 PubMed articles for JARID2 gene (see all 15 ):
    (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: 3720 HGNC: 6196 AceView: JARID2 Ensembl:ENSG00000008083 euGenes: HUgn3720
    ECgene: JARID2 H-InvDB: JARID2
    (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

    NameDescription
    ATLAS Chromosomes in Cancer entry for JARID2 Genetics and Cytogenetics in Oncology and Haematology
    (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 JARID2:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for JARID2 Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for JARID2 Browse small molecules at Sigma-Aldrich
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     Antibodies for JARD2

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