U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

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

    Summary

    Go to the top of the page Help
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    Alleles

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

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    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

    Go to the top of the page Help
    Preferred Names
    high mobility group nucleosome-binding domain-containing protein 3

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools