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Jarid2 jumonji, AT rich interactive domain 2 [ Mus musculus (house mouse) ]

Gene ID: 16468, updated on 26-Sep-2022

Summary

Official Symbol
Jarid2provided by MGI
Official Full Name
jumonji, AT rich interactive domain 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 modification-dependent histone binding activity. Involved in negative regulation of transcription by RNA polymerase II; regulation of histone methylation; and stem cell differentiation. Acts upstream of or within several processes, including cellular response to leukemia inhibitory factor; hematopoietic or lymphoid organ development; and regulation of gene expression. Located in nucleus. Part of ESC/E(Z) complex. Is expressed in several structures, including alimentary system; cardiovascular system; genitourinary system; nervous 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, Apr 2022]
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
109 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 predicted gene, 34276 Neighboring gene predicted gene, 40931 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

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
acts_upstream_of cardiac muscle cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
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 
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within dosage compensation by inactivation of X chromosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
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 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 regulation of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 
part_of histone methyltransferase complex IDA
Inferred from Direct Assay
more info
PubMed 
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
PubMed 
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/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_001205043.1NP_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
    Q62315, Q99LD1
    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
    Q62315, Q99LD1
    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
    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
    Q62315, Q99LD1
    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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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
    Q99LD1
    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
    Q99LD1
    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/Swiss-Prot
    Q62315
    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/Swiss-Prot
    Q62315
    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/Swiss-Prot
    Q62315
    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