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    Hmgb3 high mobility group box 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 305373, updated on 13-Apr-2024

    Summary

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    Symbol
    Hmgb3provided by RGD
    Full Name
    high mobility group box 3provided by RGD
    Primary source
    RGD:1564407
    See related
    Ensembl:ENSRNOG00000011096 AllianceGenome:RGD:1564407
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1564407
    Summary
    Predicted to enable DNA binding activity, bending; RNA binding activity; and four-way junction DNA binding activity. Predicted to be involved in DNA geometric change and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of B cell differentiation and negative regulation of myeloid cell differentiation. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in syndromic microphthalmia 13. Orthologous to human HMGB3 (high mobility group box 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Heart (RPKM 101.9), Thymus (RPKM 94.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Hmgb3 in Genome Data Viewer
    Location:
    Xq37
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (154341106..154346087)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (149296303..149301290)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (36690190..36694329)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene MAGE family member A13, pseudogene 1 Neighboring gene adenosylmethionine decarboxylase 1, pseudogene 2 Neighboring gene ribosomal protein SA, pseudogene 4 Neighboring gene G protein-coupled receptor 50

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Abnormal expression of HMGB-3 is significantly associated with malignant transformation of hepatocytes. Zheng WJ, et al. World J Gastroenterol, 2018 Aug 28. PMID 30166860, Free PMC Article
    2. MiR-200b in heme oxygenase-1-modified bone marrow mesenchymal stem cell-derived exosomes alleviates inflammatory injury of intestinal epithelial cells by targeting high mobility group box 3. Sun D, et al. Cell Death Dis, 2020 Jun 25. PMID 32587254, Free PMC Article
    3. HMGB proteins function as universal sentinels for nucleic-acid-mediated innate immune responses. Yanai H, et al. Nature, 2009 Nov 5. PMID 19890330
    4. Hmgb3: an HMG-box family member expressed in primitive hematopoietic cells that inhibits myeloid and B-cell differentiation. Nemeth MJ, et al. Blood, 2003 Aug 15. PMID 12714519
    5. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. MiR-200b in heme oxygenase-1-modified bone marrow mesenchymal stem cell-derived exosomes alleviates inflammatory injury of intestinal epithelial cells by targeting high mobility group box 3.
      Title: MiR-200b in heme oxygenase-1-modified bone marrow mesenchymal stem cell-derived exosomes alleviates inflammatory injury of intestinal epithelial cells by targeting high mobility group box 3.
    2. HMGB3 is involved in malignant transformation of hepatocytes and could be a useful biomarker for diagnosis and a potential target for therapy of liver cancer.
      Title: Abnormal expression of HMGB-3 is significantly associated with malignant transformation of hepatocytes.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA binding, bending IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of B cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of myeloid cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    high mobility group protein B3

    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_001173341.2 → NP_001166812.1  high mobility group protein B3 isoform 1

      See identical proteins and their annotated locations for NP_001166812.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000021
      UniProtKB/TrEMBL
      B0BN99, M0R9D4
      Conserved Domains (2) summary
      pfam00505
      Location:93 → 160
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:13 → 78
      HMG_box_2; HMG-box domain

    2. NM_001398776.1 → NP_001385705.1  high mobility group protein B3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000021
      UniProtKB/TrEMBL
      F7EWK1
      Related
      ENSRNOP00000015044.6, ENSRNOT00000015044.7
      Conserved Domains (2) summary
      pfam00505
      Location:134 → 201
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:54 → 119
      HMG_box_2; HMG-box domain

    3. NM_001398777.1 → NP_001385706.1  high mobility group protein B3 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000021
      UniProtKB/TrEMBL
      A0A0G2JVF5
      Related
      ENSRNOP00000069465.2, ENSRNOT00000082140.2
      Conserved Domains (2) summary
      pfam00505
      Location:97 → 164
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:17 → 82
      HMG_box_2; HMG-box domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086039.1 Reference GRCr8

      Range
      154341106..154346087
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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