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

Gene ID: 16468, updated on 4-Jan-2025

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, Jan 2025]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 13.8), CNS E14 (RPKM 9.2) and 27 other tissues See more
Orthologs
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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

General gene information

Gene Ontology Provided by MGI

Process Evidence Code Pubs
acts_upstream_of cardiac muscle cell proliferation PubMed 
acts_upstream_of cell population proliferation PubMed 
acts_upstream_of_or_within cellular response to leukemia inhibitory factor PubMed 
involved_in chromatin remodeling  
involved_in facultative heterochromatin formation PubMed 
acts_upstream_of_or_within liver development PubMed 
acts_upstream_of_or_within negative regulation of DNA-templated transcription PubMed 
acts_upstream_of_or_within negative regulation of cardiac muscle cell proliferation PubMed 
involved_in negative regulation of cardiac muscle cell proliferation  
involved_in negative regulation of cardiac muscle hypertrophy  
involved_in negative regulation of cardiac muscle hypertrophy  
involved_in negative regulation of transcription by RNA polymerase II PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II PubMed 
acts_upstream_of_or_within protein localization to pericentric heterochromatin PubMed 
acts_upstream_of_or_within random inactivation of X chromosome PubMed 
acts_upstream_of_or_within regulation of cell population proliferation PubMed 
involved_in regulation of gene expression  
acts_upstream_of_or_within spleen development PubMed 
involved_in stem cell differentiation PubMed 
acts_upstream_of_or_within thymus development PubMed 
Component Evidence Code Pubs
part_of ESC/E(Z) complex PubMed 
located_in chromatin  
part_of histone methyltransferase complex PubMed 
located_in mitochondrion  
located_in mitochondrion  
located_in nucleoplasm  
is_active_in nucleus  
located_in nucleus PubMed 
located_in nucleus  

General protein information

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