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Hira histone cell cycle regulator [ Mus musculus (house mouse) ]

Gene ID: 15260, updated on 11-Apr-2024

Summary

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Official Symbol
Hiraprovided by MGI
Official Full Name
histone cell cycle regulatorprovided by MGI
Primary source
MGI:MGI:99430
See related
Ensembl:ENSMUSG00000022702 AllianceGenome:MGI:99430
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
Tuple1; Gm15797; D16Ertd95e
Summary
Predicted to enable RNA polymerase II-specific DNA-binding transcription factor binding activity and histone binding activity. Predicted to contribute to nucleosome binding activity. Acts upstream of or within gastrulation; muscle cell differentiation; and osteoblast differentiation. Located in chromatin. Is expressed in several structures, including branchial arch; cardiovascular system; central nervous system; limb bud; and sensory organ. Orthologous to human HIRA (histone cell cycle regulator). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in whole brain E14.5 (RPKM 13.7), CNS E14 (RPKM 13.4) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Hira in Genome Data Viewer
Location:
16 A3; 16 11.69 cM
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (18695500..18789059)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (18876750..18970309)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E763 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:18812268-18812501 Neighboring gene cell division cycle 45 Neighboring gene RIKEN cDNA 2510002D24 gene Neighboring gene STARR-positive B cell enhancer ABC_E10892 Neighboring gene ubiquitin recognition factor in ER-associated degradation 1 Neighboring gene mitochondrial ribosomal protein L40 Neighboring gene 60S ribosomal protein L27a-like Neighboring gene STARR-positive B cell enhancer ABC_E5530 Neighboring gene STARR-positive B cell enhancer ABC_E392 Neighboring gene STARR-positive B cell enhancer ABC_E11605 Neighboring gene STARR-positive B cell enhancer ABC_E4160 Neighboring gene U2 small nuclear ribonucleoprotein B pseudogene Neighboring gene ubiquitin-conjugating enzyme E2 pseudogene Neighboring gene immunoglobulin lambda chain complex

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. HIRA complex presets transcriptional potential through coordinating depositions of the histone variants H3.3 and H2A.Z on the poised genes in mESCs. Yang Y, et al. Nucleic Acids Res, 2022 Jan 11. PMID 34893908, Free PMC Article
  2. HIRA stabilizes skeletal muscle lineage identity. Esteves de Lima J, et al. Nat Commun, 2021 Jun 8. PMID 34103504, Free PMC Article
  3. Continuous Histone Replacement by Hira Is Essential for Normal Transcriptional Regulation and De Novo DNA Methylation during Mouse Oogenesis. Nashun B, et al. Mol Cell, 2015 Nov 19. PMID 26549683, Free PMC Article
  4. Myogenic transcriptional activation of MyoD mediated by replication-independent histone deposition. Yang JH, et al. Proc Natl Acad Sci U S A, 2011 Jan 4. PMID 21173268, Free PMC Article
  5. The murine homologue of HIRA, a DiGeorge syndrome candidate gene, is expressed in embryonic structures affected in human CATCH22 patients. Wilming LG, et al. Hum Mol Genet, 1997 Feb. PMID 9063745

See all (89) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Interplay between PML NBs and HIRA for H3.3 dynamics following type I interferon stimulus.
    Title: Interplay between PML NBs and HIRA for H3.3 dynamics following type I interferon stimulus.
  2. The histone H3.3 chaperone HIRA restrains erythroid-biased differentiation of adult hematopoietic stem cells.
    Title: The histone H3.3 chaperone HIRA restrains erythroid-biased differentiation of adult hematopoietic stem cells.
  3. HIRA complex presets transcriptional potential through coordinating depositions of the histone variants H3.3 and H2A.Z on the poised genes in mESCs.
    Title: HIRA complex presets transcriptional potential through coordinating depositions of the histone variants H3.3 and H2A.Z on the poised genes in mESCs.
  4. HIRA contributes to zygote formation in mice and is implicated in human 1PN zygote phenotype.
    Title: HIRA contributes to zygote formation in mice and is implicated in human 1PN zygote phenotype.
  5. Defective folate metabolism causes germline epigenetic instability and distinguishes Hira as a phenotype inheritance biomarker.
    Title: Defective folate metabolism causes germline epigenetic instability and distinguishes Hira as a phenotype inheritance biomarker.
  6. HIRA stabilizes skeletal muscle lineage identity.
    Title: HIRA stabilizes skeletal muscle lineage identity.
  7. Haploinsufficiency of the HIRA gene located in the 22q11 deletion syndrome region is associated with abnormal neurodevelopment and impaired dendritic outgrowth.
    Title: Haploinsufficiency of the HIRA gene located in the 22q11 deletion syndrome region is associated with abnormal neurodevelopment and impaired dendritic outgrowth.
  8. HIRA, a DiGeorge Syndrome Candidate Gene, Confers Proper Chromatin Accessibility on HSCs and Supports All Stages of Hematopoiesis.
    Title: HIRA, a DiGeorge Syndrome Candidate Gene, Confers Proper Chromatin Accessibility on HSCs and Supports All Stages of Hematopoiesis.
  9. These data suggest that elimination of HIRA produces a hypertrophic response in skeletal muscle and leaves myofibers susceptible to stress-induced degeneration.
    Title: HIRA deficiency in muscle fibers causes hypertrophy and susceptibility to oxidative stress.
  10. HIRA, in cooperation with Setd1A, modulates beta-catenin expression to regulate neural stem cell proliferation and neurogenesis.
    Title: Histone chaperone HIRA regulates neural progenitor cell proliferation and neurogenesis via β-catenin.
Submit: New GeneRIF Correction See all GeneRIFs (18)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Transposon induced (1)  1 citation
  • Gene trapped (1) 
  • Targeted (8)  1 citation
  • Endonuclease-mediated (1) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
Inferred from Sequence Orthology
more info
  
enables histone binding ISO
Inferred from Sequence Orthology
more info
  
enables histone chaperone activity TAS
Traceable Author Statement
more info
  
contributes_to nucleosome binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within gastrulation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within muscle cell differentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in nucleosome assembly ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within osteoblast differentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of HIR complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of chromatin IDA
Inferred from Direct Assay
more info
 PubMed 
part_of chromatin ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
protein HIRA
Names
TUP1-like enhancer of split gene 1
TUP1-like enhancer of split protein 1
histone cell cycle regulation defective homolog A

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_010435.2 → NP_034565.2  protein HIRA

    See identical proteins and their annotated locations for NP_034565.2

    Status: VALIDATED

    Source sequence(s)
    AK168963, BC060181, CA323899
    Consensus CDS
    CCDS28031.1
    UniProtKB/Swiss-Prot
    O08845, Q3TFY0, Q3UX35, Q61666, Q62365, Q7TMW4
    Related
    ENSMUSP00000004222.8, ENSMUST00000004222.14
    Conserved Domains (5) summary
    COG2319
    Location:7 → 372
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:7 → 352
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam07569
    Location:761 → 952
    Hira; TUP1-like enhancer of split
    pfam09453
    Location:448 → 469
    HIRA_B; HIRA B motif
    sd00039
    Location:16 → 61
    7WD40; WD40 repeat [structural motif]

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_000082.7 Reference GRCm39 C57BL/6J

    Range
    18695500..18789059
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521800.4 → XP_006521863.1  protein HIRA isoform X2

    See identical proteins and their annotated locations for XP_006521863.1

    Conserved Domains (4) summary
    sd00039
    Location:31 → 85
    7WD40; WD40 repeat [structural motif]
    pfam07569
    Location:718 → 908
    Hira; TUP1-like enhancer of split
    pfam09453
    Location:404 → 426
    HIRA_B; HIRA B motif
    cl29593
    Location:25 → 308
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

  2. XM_006521799.4 → XP_006521862.1  protein HIRA isoform X2

    See identical proteins and their annotated locations for XP_006521862.1

    Conserved Domains (4) summary
    sd00039
    Location:31 → 85
    7WD40; WD40 repeat [structural motif]
    pfam07569
    Location:718 → 908
    Hira; TUP1-like enhancer of split
    pfam09453
    Location:404 → 426
    HIRA_B; HIRA B motif
    cl29593
    Location:25 → 308
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

  3. XM_036159786.1 → XP_036015679.1  protein HIRA isoform X4

    Conserved Domains (2) summary
    pfam07569
    Location:421 → 611
    Hira; TUP1-like enhancer of split
    pfam09453
    Location:107 → 129
    HIRA_B; HIRA B motif

  4. XM_036159785.1 → XP_036015678.1  protein HIRA isoform X3

    Conserved Domains (4) summary
    sd00039
    Location:53 → 90
    7WD40; WD40 repeat [structural motif]
    pfam07569
    Location:680 → 870
    Hira; TUP1-like enhancer of split
    pfam09453
    Location:366 → 388
    HIRA_B; HIRA B motif
    cl29593
    Location:2 → 270
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

  5. XM_006521801.5 → XP_006521864.1  protein HIRA isoform X3

    Conserved Domains (4) summary
    sd00039
    Location:53 → 90
    7WD40; WD40 repeat [structural motif]
    pfam07569
    Location:680 → 870
    Hira; TUP1-like enhancer of split
    pfam09453
    Location:366 → 388
    HIRA_B; HIRA B motif
    cl29593
    Location:2 → 270
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

  6. XM_006521798.4 → XP_006521861.2  protein HIRA isoform X1

    Conserved Domains (5) summary
    cd00200
    Location:7 → 345
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:9 → 54
    7WD40; WD40 repeat [structural motif]
    pfam03546
    Location:476 → 705
    Treacle; Treacher Collins syndrome protein Treacle
    pfam07569
    Location:755 → 945
    Hira; TUP1-like enhancer of split
    pfam09453
    Location:441 → 463
    HIRA_B; HIRA B motif

  7. XM_036159784.1 → XP_036015677.1  protein HIRA isoform X2

    Conserved Domains (4) summary
    sd00039
    Location:31 → 85
    7WD40; WD40 repeat [structural motif]
    pfam07569
    Location:718 → 908
    Hira; TUP1-like enhancer of split
    pfam09453
    Location:404 → 426
    HIRA_B; HIRA B motif
    cl29593
    Location:25 → 308
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

RNA

  1. XR_003951761.2 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001005228.1: Suppressed sequence

    Description
    NM_001005228.1: This RefSeq was temporarily suppressed because currently there are not sufficient data to support this transcript.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q61666.3 GenPept UniProtKB/Swiss-Prot:Q61666

Gene LinkOut

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