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    Jarid2 jumonji and AT-rich interaction domain containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 681740, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Jarid2provided by RGD
    Official Full Name
    jumonji and AT-rich interaction domain containing 2provided by RGD
    Primary source
    RGD:1591663
    See related
    EnsemblRapid:ENSRNOG00000045918 AllianceGenome:RGD:1591663
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable several functions, including chromatin binding activity; ubiquitin binding activity; and ubiquitin-modified histone reader activity. Predicted to contribute to histone H3K27 methyltransferase activity. Involved in negative regulation of cardiac muscle cell proliferation and negative regulation of cardiac muscle hypertrophy. Predicted to be located in chromatin; mitochondrion; and nucleoplasm. Predicted to be part of ESC/E(Z) complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in autistic disorder. Orthologous to human JARID2 (jumonji and AT-rich interaction domain containing 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 81.4), Kidney (RPKM 80.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Jarid2 in Genome Data Viewer
    Location:
    17p14
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (19983217..20163598, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (19777487..19957696, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (20183440..20365219, complement)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene dystrobrevin binding protein 1 Neighboring gene jumonji and AT-rich interaction domain containing 2 like 1 Neighboring gene uncharacterized LOC120097859 Neighboring gene uncharacterized LOC120097911

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Immune function genes CD99L2, JARID2 and TPO show association with autism spectrum disorder. Ramos PS, et al. Mol Autism, 2012 Jun 9. PMID 22681640, Free PMC Article
    2. MiR-155 inhibition ameliorates 2, 4, 6-Trinitrobenzenesulfonic acid (TNBS)-induced experimental colitis in rat via influencing the differentiation of Th17 cells by Jarid2. Liu Y, et al. Int Immunopharmacol, 2018 Nov. PMID 30253332
    3. miRNA-204 drives cardiomyocyte proliferation via targeting Jarid2. Liang D, et al. Int J Cardiol, 2015 Dec 15. PMID 26298346
    4. Induction by left ventricular overload and left ventricular failure of the human Jumonji gene (JARID2) encoding a protein that regulates transcription and reexpression of a protective fetal program. Bovill E, et al. J Thorac Cardiovasc Surg, 2008 Sep. PMID 18805276
    5. JUMONJI, a critical factor for cardiac development, functions as a transcriptional repressor. Kim TG, et al. J Biol Chem, 2003 Oct 24. PMID 12890668

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. miR-155 inhibition ameliorates TNBS-induced colitis by regulating the Th17 cells differentiation and function and Jarid2/notch1 is closely related with the process.
      Title: MiR-155 inhibition ameliorates 2, 4, 6-Trinitrobenzenesulfonic acid (TNBS)-induced experimental colitis in rat via influencing the differentiation of Th17 cells by Jarid2.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT contributes_to histone H3K27 methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to histone H3K27 methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT enables histone demethylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    NOT enables histone demethylase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-modified histone reader activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of cardiac muscle cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in facultative heterochromatin formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within liver development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cardiac muscle cell proliferation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of cardiac muscle cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of cardiac muscle cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cardiac muscle hypertrophy IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in negative regulation of cardiac muscle hypertrophy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein localization to pericentric heterochromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within random inactivation of X chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within spleen development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in stem cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within thymus development ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of ESC/E(Z) complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of histone methyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein Jumonji
    Names
    jumonji, AT rich interactive domain 2

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001427247.1 → NP_001414176.1  protein Jumonji

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/TrEMBL
      A6J730, M0RBV7
      Related
      ENSRNOP00000067055.1, ENSRNOT00000070962.5

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086035.1 Reference GRCr8

      Range
      19983217..20163598 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039096474.2 → XP_038952402.1  protein Jumonji isoform X3

      UniProtKB/TrEMBL
      A6J730, A6J731, M0RBV7
      Conserved Domains (4) summary
      smart00545
      Location:554 → 595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618 → 729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:914 → 1029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:1137 → 1190
      zf-C5HC2; C5HC2 zinc finger

    2. XM_017600709.3 → XP_017456198.1  protein Jumonji isoform X3

      UniProtKB/TrEMBL
      A6J730, A6J731, M0RBV7
      Conserved Domains (4) summary
      smart00545
      Location:554 → 595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618 → 729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:914 → 1029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:1137 → 1190
      zf-C5HC2; C5HC2 zinc finger

    3. XM_017600710.3 → XP_017456199.1  protein Jumonji isoform X3

      UniProtKB/TrEMBL
      A6J730, A6J731, M0RBV7
      Conserved Domains (4) summary
      smart00545
      Location:554 → 595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618 → 729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:914 → 1029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:1137 → 1190
      zf-C5HC2; C5HC2 zinc finger

    4. XM_017600708.3 → XP_017456197.1  protein Jumonji isoform X3

      UniProtKB/TrEMBL
      A6J730, A6J731, M0RBV7
      Conserved Domains (4) summary
      smart00545
      Location:554 → 595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618 → 729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:914 → 1029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:1137 → 1190
      zf-C5HC2; C5HC2 zinc finger

    5. XM_063276747.1 → XP_063132817.1  protein Jumonji isoform X4

      UniProtKB/TrEMBL
      A6J732

    6. XM_039096472.2 → XP_038952400.1  protein Jumonji isoform X2

      UniProtKB/TrEMBL
      A6J731
      Related
      ENSRNOP00000100119.1, ENSRNOT00000122788.1
      Conserved Domains (4) summary
      smart00545
      Location:577 → 618
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:641 → 752
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:937 → 1052
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:1160 → 1213
      zf-C5HC2; C5HC2 zinc finger

    7. XM_017600711.3 → XP_017456200.1  protein Jumonji isoform X4

      UniProtKB/TrEMBL
      A6J731, A6J732
      Conserved Domains (5) summary
      smart00501
      Location:449 → 540
      BRIGHT; BRIGHT, ARID (A/T-rich interaction domain) domain
      smart00545
      Location:382 → 423
      JmjN; Small domain found in the jumonji family of transcription factors
      pfam02373
      Location:742 → 857
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:965 → 1018
      zf-C5HC2; C5HC2 zinc finger
      pfam12288
      Location:89 → 184
      CsoS2_M; Carboxysome shell peptide mid-region

    8. XM_063276746.1 → XP_063132816.1  protein Jumonji isoform X4

      UniProtKB/TrEMBL
      A6J732

    9. XM_017600707.3 → XP_017456196.1  protein Jumonji isoform X1

      UniProtKB/TrEMBL
      A6J731
      Related
      ENSRNOP00000112380.1, ENSRNOT00000128989.1
    Nucleotide Protein Strain
    Heading Accession and Version

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