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Hmgn3 high mobility group nucleosomal binding domain 3 [ Mus musculus (house mouse) ]

Gene ID: 94353, updated on 2-Nov-2024

Summary

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Official Symbol
Hmgn3provided by MGI
Official Full Name
high mobility group nucleosomal binding domain 3provided by MGI
Primary source
MGI:MGI:2138069
See related
Ensembl:ENSMUSG00000066456 AllianceGenome:MGI:2138069
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
TRIP7; 1110002A15Rik; 6330514M13Rik
Summary
Enables chromatin binding activity. Acts upstream of or within positive regulation of DNA-binding transcription factor activity; positive regulation of transcription by RNA polymerase II; and regulation of insulin secretion involved in cellular response to glucose stimulus. Located in nucleus. Is expressed in several structures, including central nervous system; epithelium; eye; genitourinary system; and limb. Orthologous to human HMGN3 (high mobility group nucleosomal binding domain 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in CNS E18 (RPKM 41.8), CNS E14 (RPKM 31.6) and 12 other tissues See more
Orthologs
human all
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Genomic context

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See Hmgn3 in Genome Data Viewer
Location:
9 E2; 9 45.29 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (82991995..83029411, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (83109942..83147358, complement)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_24786 Neighboring gene predicted gene, 35746 Neighboring gene uncharacterized LOC115486417 Neighboring gene STARR-positive B cell enhancer ABC_E1791 Neighboring gene predicted gene 2065 Neighboring gene STARR-positive B cell enhancer mm9_chr9:83040103-83040404 Neighboring gene predicted gene 27216 Neighboring gene predicted gene, 46122

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 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. Expression, regulation and function of Hmgn3 during decidualization in mice. Li DD, et al. Mol Cell Endocrinol, 2015 Sep 15. PMID 26112184
  2. Rif1 and Hmgn3 regulate the conversion of murine trophoblast stem cells. Zhang W, et al. Cell Rep, 2022 Mar 29. PMID 35354046
  3. The nucleosome binding protein HMGN3 is expressed in pancreatic alpha-cells and affects plasma glucagon levels in mice. Kurahashi T, et al. J Cell Biochem, 2010 Jan 1. PMID 19885867, Free PMC Article
  4. The chromatin-binding protein HMGN3 stimulates histone acetylation and transcription across the Glyt1 gene. Barkess G, et al. Biochem J, 2012 Mar 15. PMID 22150271, Free PMC Article
  5. Differential expression of the HMGN family of chromatin proteins during ocular development. Lucey MM, et al. Gene Expr Patterns, 2008 Jul. PMID 18502697, Free PMC Article

See all (34) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Rif1 and Hmgn3 regulate the conversion of murine trophoblast stem cells.
    Title: Rif1 and Hmgn3 regulate the conversion of murine trophoblast stem cells.
  2. Hmgn3 may play an important role during mouse decidualization.
    Title: Expression, regulation and function of Hmgn3 during decidualization in mice.
  3. Phenotypic analysis of Hmgn1(tm1/tm1), Hmgn3(tm1/tm1), and Hmgn5(tm1/tm1) mice and their wild type littermates with a battery of standardized tests uncovered variant-specific abnormalities.
    Title: High mobility group N proteins modulate the fidelity of the cellular transcriptional profile in a tissue- and variant-specific manner.
  4. HMGN3a/b-stimulated H3K14 acetylation across the bodies of large genes such as Glyt1 can lead to more efficient transcription elongation and increased mRNA production
    Title: The chromatin-binding protein HMGN3 stimulates histone acetylation and transcription across the Glyt1 gene.
  5. Our studies demonstrate a link between HMGN3 and glucagon blood levels that is not directly dependent of the function of pancreatic alpha-cells.
    Title: The nucleosome binding protein HMGN3 is expressed in pancreatic alpha-cells and affects plasma glucagon levels in mice.
  6. loss of HMGN3 impairs glucose-stimulated insulin secretion and leads to a diabetic phenotype.
    Title: The nucleosome binding protein HMGN3 modulates the transcription profile of pancreatic beta cells and affects insulin secretion.
  7. results suggest that HMGN3 regulates glycine transporter 1 expression and demonstrate that members of the HMGN family can regulate the transcription of specific genes
    Title: Chromosomal proteins HMGN3a and HMGN3b regulate the expression of glycine transporter 1.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Targeted (2)  1 citation

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 chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chromatin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables chromatin binding ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
enables nucleosomal DNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in chromatin organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in chromatin organization IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of insulin secretion involved in cellular response to glucose stimulus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in chromatin IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol 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 ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 

General protein information

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Preferred Names
high mobility group nucleosome-binding domain-containing protein 3

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_026122.4 → NP_080398.1  high mobility group nucleosome-binding domain-containing protein 3 isoform Hmgn3a

    See identical proteins and their annotated locations for NP_080398.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (a) encodes the longer isoform (Hmgn3a).
    Source sequence(s)
    AK153223, CD742335, CJ150650
    Consensus CDS
    CCDS52872.1
    UniProtKB/Swiss-Prot
    Q7M737, Q99JU1, Q9DCB1
    Related
    ENSMUSP00000124278.2, ENSMUST00000162246.9
    Conserved Domains (1) summary
    pfam01101
    Location:2 → 93
    HMG14_17; HMG14 and HMG17

  2. NM_175074.2 → NP_778249.1  high mobility group nucleosome-binding domain-containing protein 3 isoform Hmgn3b

    See identical proteins and their annotated locations for NP_778249.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (b) uses an alternate donor splice site at the penultimate exon compared to variant a. This results in a frame-shift, early translation termination, and a shorter isoform (Hmgn3b) with a distinct C-terminus compared to isoform Hmgn3a.
    Source sequence(s)
    BK000005, CD742335, CJ150650
    Consensus CDS
    CCDS52873.1
    UniProtKB/Swiss-Prot
    Q9DCB1
    Related
    ENSMUSP00000125616.2, ENSMUST00000161796.9
    Conserved Domains (1) summary
    pfam01101
    Location:2 → 67
    HMG14_17; HMG14 and HMG17

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_000075.7 Reference GRCm39 C57BL/6J

    Range
    82991995..83029411 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006511591.4 → XP_006511654.1  high mobility group nucleosome-binding domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006511654.1

    UniProtKB/TrEMBL
    A0A087WSB8
    Related
    ENSMUSP00000140980.2, ENSMUST00000187193.7
    Conserved Domains (1) summary
    pfam01101
    Location:1 → 95
    HMG14_17; HMG14 and HMG17

  2. XM_006511590.4 → XP_006511653.1  high mobility group nucleosome-binding domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006511653.1

    UniProtKB/TrEMBL
    A0A087WSB8
    Conserved Domains (1) summary
    pfam01101
    Location:1 → 95
    HMG14_17; HMG14 and HMG17
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9DCB1.1 GenPept UniProtKB/Swiss-Prot:Q9DCB1

Gene LinkOut

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