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

Gene ID: 681740, updated on 10-Oct-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 histone demethylase activity; ubiquitin binding activity; and ubiquitin modification-dependent histone binding activity. Involved in negative regulation of cardiac muscle cell proliferation and negative regulation of cardiac muscle hypertrophy. Predicted to be located in 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, Apr 2022]
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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