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    Hmgb1 high mobility group box 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25459, updated on 28-Jan-2025

    Summary

    Symbol
    Hmgb1provided by RGD
    Full Name
    high mobility group box 1provided by RGD
    Primary source
    RGD:2802
    See related
    AllianceGenome:RGD:2802
    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
    Hmg1; Ac2-008
    Summary
    Enables several functions, including DNA binding activity; heparin binding activity; and signaling receptor binding activity. Involved in several processes, including positive regulation of cytokine production; regulation of DNA metabolic process; and response to bacterium. Acts upstream of or within several processes, including DNA geometric change; induction of positive chemotaxis; and positive regulation of mesenchymal cell proliferation. Located in cytosol; extracellular space; and membrane raft. Used to study artery disease (multiple); brain infarction; congestive heart failure; high grade glioma; and sciatic neuropathy. Biomarker of several diseases, including atherosclerosis; colon adenocarcinoma; hydrocephalus; middle cerebral artery infarction; and obstructive jaundice. Human ortholog(s) of this gene implicated in amyotrophic lateral sclerosis. Orthologous to human HMGB1 (high mobility group box 1). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
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    Genomic context

    See Hmgb1 in Genome Data Viewer
    Location:
    12p11
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (11009236..11015941)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (5972950..5979658)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (7082529..7090246)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108352413 Neighboring gene small nucleolar RNA SNORA38 Neighboring gene uncharacterized LOC134481148 Neighboring gene ribosomal protein L18, pseudogene 15

    Genomic regions, transcripts, and products

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    General gene information

    Clone Names

    • MGC93598, MGC93599

    Gene Ontology Provided by RGD

    Items 1 - 25 of 45
    Function Evidence Code Pubs
    enables 5S rRNA binding PubMed 
    enables C-X-C chemokine binding  
    enables DNA binding  
    enables DNA binding, bending  
    enables DNA binding, bending PubMed 
    enables DNA binding, bending  
    enables DNA binding, bending  
    enables DNA polymerase binding  
    enables DNA-binding transcription factor binding  
    enables RAGE receptor binding PubMed 
    enables RAGE receptor binding PubMed 
    enables RNA polymerase II-specific DNA-binding transcription factor binding  
    enables bent DNA binding PubMed 
    enables bubble DNA binding  
    enables calcium-dependent protein kinase regulator activity  
    enables crossed form four-way junction DNA binding PubMed 
    enables cytokine activity PubMed 
    enables cytokine activity  
    enables damaged DNA binding  
    enables double-stranded DNA binding PubMed 
    enables double-stranded DNA binding  
    enables double-stranded RNA binding  
    enables four-way junction DNA binding PubMed 
    enables four-way junction DNA binding  
    enables glycolipid binding PubMed 
    enables heparin binding PubMed 
    enables heparin binding PubMed 
    enables integrin binding  
    enables lipopolysaccharide binding  
    enables lyase activity  
    enables non-sequence-specific DNA binding, bending  
    enables nucleic acid binding  
    enables open form four-way junction DNA binding PubMed 
    enables peptide binding PubMed 
    enables phosphatidylserine binding  
    enables protein binding PubMed 
    enables protein heterodimerization activity PubMed 
    enables protein kinase activator activity  
    enables receptor ligand activity  
    enables single-stranded DNA binding PubMed 
    enables single-stranded RNA binding  
    enables supercoiled DNA binding  
    enables transcription cis-regulatory region binding  
    enables transcription coactivator activity  
    enables transcription corepressor activity  
    Items 1 - 25 of 45
    Items 1 - 25 of 126
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA geometric change PubMed 
    involved_in DNA geometric change  
    involved_in DNA recombination  
    involved_in DNA repair  
    involved_in MyD88-dependent toll-like receptor signaling pathway  
    involved_in T-helper 1 cell activation  
    involved_in T-helper 1 cell differentiation  
    involved_in V(D)J recombination  
    involved_in actin cytoskeleton organization PubMed 
    involved_in activation of innate immune response  
    involved_in apoptotic cell clearance  
    involved_in apoptotic cell clearance  
    involved_in autophagy  
    involved_in base-excision repair  
    involved_in cell morphogenesis PubMed 
    involved_in cellular response to interleukin-1 PubMed 
    acts_upstream_of_or_within cellular response to interleukin-7  
    involved_in cellular response to lipopolysaccharide  
    involved_in chemotaxis PubMed 
    involved_in chemotaxis  
    involved_in chromatin organization  
    involved_in circadian rhythm PubMed 
    involved_in double-strand break repair via nonhomologous end joining  
    involved_in endothelial cell chemotaxis  
    involved_in endothelial cell proliferation  
    acts_upstream_of_or_within eye development  
    acts_upstream_of glycogen catabolic process  
    involved_in heterochromatin formation  
    acts_upstream_of_or_within induction of positive chemotaxis PubMed 
    involved_in inflammatory response  
    involved_in inflammatory response to antigenic stimulus  
    involved_in innate immune response  
    acts_upstream_of_or_within lung development  
    involved_in macrophage activation involved in immune response  
    involved_in male-specific defense response to bacterium PubMed 
    acts_upstream_of myeloid cell differentiation  
    involved_in myeloid dendritic cell activation  
    acts_upstream_of myeloid progenitor cell differentiation  
    involved_in myoblast proliferation PubMed 
    involved_in negative regulation of CD4-positive, alpha-beta T cell differentiation  
    involved_in negative regulation of DNA replication PubMed 
    involved_in negative regulation of RNA polymerase II transcription preinitiation complex assembly  
    involved_in negative regulation of apoptotic cell clearance  
    involved_in negative regulation of blood vessel endothelial cell migration  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of type II interferon production  
    involved_in nervous system development PubMed 
    involved_in neuron apoptotic process PubMed 
    involved_in neuron projection development PubMed 
    involved_in neutrophil clearance  
    involved_in neutrophil clearance  
    involved_in nucleosome assembly  
    involved_in plasmacytoid dendritic cell activation  
    involved_in positive regulation of DNA ligase activity  
    involved_in positive regulation of DNA ligation PubMed 
    involved_in positive regulation of ERK1 and ERK2 cascade  
    involved_in positive regulation of JNK cascade  
    involved_in positive regulation of MAPK cascade  
    involved_in positive regulation of activated T cell proliferation  
    involved_in positive regulation of apoptotic process PubMed 
    involved_in positive regulation of apoptotic process  
    involved_in positive regulation of autophagy PubMed 
    involved_in positive regulation of autophagy  
    involved_in positive regulation of blood vessel endothelial cell migration  
    acts_upstream_of_or_within positive regulation of cell migration PubMed 
    involved_in positive regulation of cell population proliferation PubMed 
    involved_in positive regulation of chemokine (C-X-C motif) ligand 2 production  
    involved_in positive regulation of cysteine-type endopeptidase activity  
    involved_in positive regulation of cytosolic calcium ion concentration  
    involved_in positive regulation of dendritic cell differentiation  
    acts_upstream_of_or_within positive regulation of glycogen catabolic process  
    involved_in positive regulation of innate immune response  
    involved_in positive regulation of interferon-alpha production  
    involved_in positive regulation of interferon-beta production  
    involved_in positive regulation of interleukin-1 beta production  
    involved_in positive regulation of interleukin-1 production PubMed 
    involved_in positive regulation of interleukin-1 production  
    involved_in positive regulation of interleukin-10 production  
    involved_in positive regulation of interleukin-12 production  
    involved_in positive regulation of interleukin-6 production PubMed 
    involved_in positive regulation of interleukin-6 production PubMed 
    involved_in positive regulation of interleukin-6 production  
    involved_in positive regulation of interleukin-8 production PubMed 
    involved_in positive regulation of interleukin-8 production  
    involved_in positive regulation of macrophage inflammatory protein 1 alpha production PubMed 
    acts_upstream_of_or_within positive regulation of mesenchymal cell proliferation PubMed 
    involved_in positive regulation of mismatch repair  
    acts_upstream_of_or_within positive regulation of mitotic cell cycle PubMed 
    involved_in positive regulation of monocyte chemotactic protein-1 production  
    involved_in positive regulation of monocyte chemotaxis  
    involved_in positive regulation of myeloid cell apoptotic process PubMed 
    acts_upstream_of_or_within positive regulation of myeloid cell differentiation  
    acts_upstream_of_or_within positive regulation of myeloid progenitor cell differentiation  
    involved_in positive regulation of myoblast differentiation PubMed 
    involved_in positive regulation of neuron projection development PubMed 
    involved_in positive regulation of non-canonical NF-kappaB signal transduction  
    acts_upstream_of_or_within positive regulation of protein phosphorylation  
    involved_in positive regulation of smooth muscle cell migration PubMed 
    involved_in positive regulation of sprouting angiogenesis  
    involved_in positive regulation of toll-like receptor 2 signaling pathway  
    involved_in positive regulation of toll-like receptor 4 signaling pathway  
    involved_in positive regulation of toll-like receptor 9 signaling pathway  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II  
    involved_in positive regulation of transcription by RNA polymerase II  
    involved_in positive regulation of tumor necrosis factor production PubMed 
    involved_in positive regulation of tumor necrosis factor production PubMed 
    involved_in positive regulation of tumor necrosis factor production  
    involved_in positive regulation of vascular endothelial cell proliferation  
    involved_in positive regulation of wound healing  
    involved_in protein-containing complex assembly PubMed 
    involved_in regulation of T cell mediated immune response to tumor cell  
    involved_in regulation of T cell mediated immune response to tumor cell  
    involved_in regulation of nucleotide-excision repair  
    involved_in regulation of restriction endodeoxyribonuclease activity  
    involved_in regulation of tolerance induction  
    involved_in regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within response to glucocorticoid  
    involved_in response to glucose PubMed 
    involved_in response to insulin PubMed 
    involved_in response to lipopolysaccharide PubMed 
    involved_in response to type II interferon PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    involved_in signal transduction  
    involved_in toll-like receptor 2 signaling pathway  
    involved_in toll-like receptor 4 signaling pathway  
    acts_upstream_of transcription by RNA polymerase II  
    Items 1 - 25 of 126
    Component Evidence Code Pubs
    part_of alphav-beta3 integrin-HMGB1 complex  
    located_in cell surface  
    located_in chromatin  
    located_in chromosome  
    located_in condensed chromosome  
    located_in cytoplasm  
    located_in cytosol PubMed 
    located_in early endosome  
    located_in endoplasmic reticulum  
    located_in endoplasmic reticulum-Golgi intermediate compartment  
    located_in extracellular space PubMed 
    is_active_in extracellular space  
    located_in extracellular space  
    located_in membrane raft PubMed 
    located_in neuron projection  
    located_in nucleus  
    located_in nucleus  
    located_in plasma membrane  
    part_of transcription repressor complex  

    General protein information

    Preferred Names
    high mobility group protein B1
    Names
    Ac2-008-like
    HMG-1
    amphoterin
    heparin-binding protein p30
    high mobility group 1
    high mobility group protein 1

    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_012963.4NP_037095.1  high mobility group protein B1

      See identical proteins and their annotated locations for NP_037095.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000012
      UniProtKB/Swiss-Prot
      P63159, Q548R9
      UniProtKB/TrEMBL
      B4F758, D3ZXR5
      Conserved Domains (2) summary
      pfam00505
      Location:95162
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:678
      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_086030.1 Reference GRCr8

      Range
      11009236..11015941
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063271081.1XP_063127151.1  high mobility group protein B1 isoform X1

      UniProtKB/Swiss-Prot
      P63159, Q548R9
      UniProtKB/TrEMBL
      B4F758, D3ZXR5
    2. XM_063271080.1XP_063127150.1  high mobility group protein B1 isoform X1

      UniProtKB/Swiss-Prot
      P63159, Q548R9
      UniProtKB/TrEMBL
      B4F758, D3ZXR5
    3. XM_039089112.2XP_038945040.1  high mobility group protein B1 isoform X1

      UniProtKB/Swiss-Prot
      P63159, Q548R9
      UniProtKB/TrEMBL
      B4F758, D3ZXR5
      Conserved Domains (2) summary
      pfam00505
      Location:95162
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:678
      HMG_box_2; HMG-box domain
    4. XM_063271082.1XP_063127152.1  high mobility group protein B1 isoform X1

      UniProtKB/Swiss-Prot
      P63159, Q548R9
      UniProtKB/TrEMBL
      B4F758, D3ZXR5
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