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    Jarid2 jumonji and AT-rich interaction domain containing 2 [ Mus musculus (house mouse) ]

    Gene ID: 16468, updated on 9-Dec-2024

    Summary

    Official Symbol
    Jarid2provided by MGI
    Official Full Name
    jumonji and AT-rich interaction domain containing 2provided by MGI
    Primary source
    MGI:MGI:104813
    See related
    Ensembl:ENSMUSG00000038518 AllianceGenome:MGI:104813
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Jmj; jumonji
    Summary
    Enables several functions, including chromatin binding activity; ubiquitin binding activity; and ubiquitin-modified histone reader activity. Contributes to histone H3K27 methyltransferase activity. Involved in facultative heterochromatin formation; negative regulation of transcription by RNA polymerase II; and stem cell differentiation. Acts upstream of or within several processes, including cellular response to leukemia inhibitory factor; hematopoietic or lymphoid organ development; and negative regulation of macromolecule biosynthetic process. Located in nucleus. Part of ESC/E(Z) complex. Is expressed in several structures, including alimentary system; cardiovascular system; central nervous system; genitourinary system; and sensory organ. 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, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 13.8), CNS E14 (RPKM 9.2) and 27 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Jarid2 in Genome Data Viewer
    Location:
    13 A5; 13 21.66 cM
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (44881817..45075119)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (44730774..44921643)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:44630976-44631169 Neighboring gene STARR-seq mESC enhancer starr_34362 Neighboring gene STARR-seq mESC enhancer starr_34363 Neighboring gene predicted gene, 34276 Neighboring gene predicted gene, 40931 Neighboring gene STARR-seq mESC enhancer starr_34369 Neighboring gene STARR-seq mESC enhancer starr_34371 Neighboring gene STARR-positive B cell enhancer ABC_E10792 Neighboring gene STARR-seq mESC enhancer starr_34375 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:44825976-44826085 Neighboring gene STARR-positive B cell enhancer ABC_E9399 Neighboring gene STARR-positive B cell enhancer ABC_E5391 Neighboring gene STARR-seq mESC enhancer starr_34376 Neighboring gene STARR-seq mESC enhancer starr_34381 Neighboring gene STARR-seq mESC enhancer starr_34384 Neighboring gene dystrobrevin binding protein 1 Neighboring gene predicted gene, 23104

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

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

    General protein information

    Preferred Names
    protein Jumonji
    Names
    jumonji, AT rich interactive domain 2
    jumonji/ARID domain-containing protein 2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001205043.2NP_001191972.1  protein Jumonji isoform 1

      See identical proteins and their annotated locations for NP_001191972.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 3 encode the same isoform (1).
      Source sequence(s)
      AC166074, AC170597
      Consensus CDS
      CCDS36646.1
      UniProtKB/Swiss-Prot
      Q3TPU4, Q3UHS7, Q62315, Q99LD1
      UniProtKB/TrEMBL
      G3UZT8
      Related
      ENSMUSP00000134205.2, ENSMUST00000173246.8
      Conserved Domains (4) summary
      smart00545
      Location:554595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:9141029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:11371190
      zf-C5HC2; C5HC2 zinc finger
    2. NM_001205044.1NP_001191973.1  protein Jumonji isoform 1

      See identical proteins and their annotated locations for NP_001191973.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1, 2 and 3 encode the same isoform (1).
      Source sequence(s)
      AC166074, AC170597
      Consensus CDS
      CCDS36646.1
      UniProtKB/Swiss-Prot
      Q3TPU4, Q3UHS7, Q62315, Q99LD1
      UniProtKB/TrEMBL
      G3UZT8
      Related
      ENSMUSP00000134675.2, ENSMUST00000173704.8
      Conserved Domains (4) summary
      smart00545
      Location:554595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:9141029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:11371190
      zf-C5HC2; C5HC2 zinc finger
    3. NM_001360281.1NP_001347210.1  protein Jumonji isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC166074, AC170597
      UniProtKB/TrEMBL
      Q1LZL9
      Conserved Domains (5) summary
      smart00545
      Location:382423
      JmjN; Small domain found in the jumonji family of transcription factors
      pfam02373
      Location:742857
      JmjC; JmjC domain, hydroxylase
      cd16870
      Location:446557
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02928
      Location:9651018
      zf-C5HC2; C5HC2 zinc finger
      pfam09422
      Location:218390
      WTX; WTX protein
    4. NM_021878.3NP_068678.1  protein Jumonji isoform 1

      See identical proteins and their annotated locations for NP_068678.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1, 2 and 3 encode the same isoform (1).
      Source sequence(s)
      AC166074, AC170597, BC052444
      Consensus CDS
      CCDS36646.1
      UniProtKB/Swiss-Prot
      Q3TPU4, Q3UHS7, Q62315, Q99LD1
      UniProtKB/TrEMBL
      G3UZT8
      Related
      ENSMUSP00000037774.8, ENSMUST00000044608.14
      Conserved Domains (4) summary
      smart00545
      Location:554595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:9141029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:11371190
      zf-C5HC2; C5HC2 zinc finger

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000079.7 Reference GRCm39 C57BL/6J

      Range
      44881817..45075119
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036157864.1XP_036013757.1  protein Jumonji isoform X1

      UniProtKB/Swiss-Prot
      Q3TPU4, Q3UHS7, Q62315, Q99LD1
      UniProtKB/TrEMBL
      G3UZT8
      Conserved Domains (4) summary
      smart00545
      Location:554595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:9141029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:11371190
      zf-C5HC2; C5HC2 zinc finger
    2. XM_036157863.1XP_036013756.1  protein Jumonji isoform X1

      UniProtKB/Swiss-Prot
      Q3TPU4, Q3UHS7, Q62315, Q99LD1
      UniProtKB/TrEMBL
      G3UZT8
      Related
      ENSMUSP00000134630.2, ENSMUST00000173906.3
      Conserved Domains (4) summary
      smart00545
      Location:554595
      JmjN; Small domain found in the jumonji family of transcription factors
      cd16870
      Location:618729
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02373
      Location:9141029
      JmjC; JmjC domain, hydroxylase
      pfam02928
      Location:11371190
      zf-C5HC2; C5HC2 zinc finger
    3. XM_006516859.4XP_006516922.1  protein Jumonji isoform X3

      See identical proteins and their annotated locations for XP_006516922.1

      UniProtKB/TrEMBL
      Q1LZL9
      Conserved Domains (5) summary
      smart00545
      Location:382423
      JmjN; Small domain found in the jumonji family of transcription factors
      pfam02373
      Location:742857
      JmjC; JmjC domain, hydroxylase
      cd16870
      Location:446557
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02928
      Location:9651018
      zf-C5HC2; C5HC2 zinc finger
      pfam09422
      Location:218390
      WTX; WTX protein
    4. XM_006516858.5XP_006516921.1  protein Jumonji isoform X2

      See identical proteins and their annotated locations for XP_006516921.1

      UniProtKB/TrEMBL
      G3UZT8
      Conserved Domains (5) summary
      smart00545
      Location:516557
      JmjN; Small domain found in the jumonji family of transcription factors
      pfam02373
      Location:876991
      JmjC; JmjC domain, hydroxylase
      cd16870
      Location:580691
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02928
      Location:10991152
      zf-C5HC2; C5HC2 zinc finger
      pfam09422
      Location:352524
      WTX; WTX protein
    5. XM_006516860.4XP_006516923.1  protein Jumonji isoform X3

      See identical proteins and their annotated locations for XP_006516923.1

      UniProtKB/TrEMBL
      Q1LZL9
      Conserved Domains (5) summary
      smart00545
      Location:382423
      JmjN; Small domain found in the jumonji family of transcription factors
      pfam02373
      Location:742857
      JmjC; JmjC domain, hydroxylase
      cd16870
      Location:446557
      ARID_JARD2; ARID/BRIGHT DNA binding domain of Jumonji/ARID domain-containing protein 2 (JARID2) and similar proteins
      pfam02928
      Location:9651018
      zf-C5HC2; C5HC2 zinc finger
      pfam09422
      Location:218390
      WTX; WTX protein