Format

Send to:

Choose Destination

Links from PubMed

    • Showing Current items.

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

    Gene ID: 25459, updated on 16-Apr-2017
    Symbol
    Hmgb1provided by RGD
    Full Name
    high mobility group box 1provided by RGD
    Primary source
    RGD:2802
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    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
    heparin binding protein that facilitates neurite outgrowth [RGD, Feb 2006]
    Annotation information
    Annotation category: partial on reference assembly
    Location:
    12p11
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (7082529..7090246)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 12 NC_005111.3 (9177615..9178878)

    Chromosome 12 - NC_005111.4Genomic Context describing neighboring genes Neighboring gene ubiquitin specific peptidase like 1 Neighboring gene uncharacterized LOC108352413 Neighboring gene high mobility group protein B1-like Neighboring gene uncharacterized LOC108352414 Neighboring gene similar to 60S ribosomal protein L18

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    • Autophagy - animal, organism-specific biosystem (from KEGG)
      Autophagy - animal, organism-specific biosystemAutophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily cons...
    • Autophagy - animal, conserved biosystem (from KEGG)
      Autophagy - animal, conserved biosystemAutophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily cons...
    • Base excision repair, organism-specific biosystem (from KEGG)
      Base excision repair, organism-specific biosystemBase excision repair (BER) is the predominant DNA damage repair pathway for the processing of small base lesions, derived from oxidation and alkylation damages. BER is normally defined as DNA repair ...
    • Base excision repair, conserved biosystem (from KEGG)
      Base excision repair, conserved biosystemBase excision repair (BER) is the predominant DNA damage repair pathway for the processing of small base lesions, derived from oxidation and alkylation damages. BER is normally defined as DNA repair ...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Clone Names

    • MGC93598, MGC93599

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    5S rRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    C-X-C chemokine binding ISO
    Inferred from Sequence Orthology
    more info
     
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    DNA binding, bending IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA binding, bending ISO
    Inferred from Sequence Orthology
    more info
     
    DNA polymerase binding ISO
    Inferred from Sequence Orthology
    more info
     
    RAGE receptor binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    RAGE receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    bent DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    bubble DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    calcium-dependent protein kinase regulator activity ISO
    Inferred from Sequence Orthology
    more info
     
    crossed form four-way junction DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytokine activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytokine activity ISO
    Inferred from Sequence Orthology
    more info
     
    damaged DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    double-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    four-way junction DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    glycolipid binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    heparin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    heparin binding TAS
    Traceable Author Statement
    more info
    PubMed 
    lipopolysaccharide binding ISO
    Inferred from Sequence Orthology
    more info
     
    lyase activity ISO
    Inferred from Sequence Orthology
    more info
     
    open form four-way junction DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    peptide binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    phosphatidylserine binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein dimerization activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein kinase activator activity ISO
    Inferred from Sequence Orthology
    more info
     
    repressing transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    single-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    supercoiled DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    transcription factor activity, sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    transcription factor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    DNA geometric change IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    T-helper 1 cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    T-helper 1 cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    V(D)J recombination ISO
    Inferred from Sequence Orthology
    more info
     
    actin cytoskeleton reorganization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    activation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    adaptive immune response IEA
    Inferred from Electronic Annotation
    more info
     
    apoptotic cell clearance ISO
    Inferred from Sequence Orthology
    more info
     
    apoptotic cell clearance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    autophagy IEA
    Inferred from Electronic Annotation
    more info
     
    base-excision repair ISO
    Inferred from Sequence Orthology
    more info
     
    cell morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cellular response to interleukin-1 IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    chemotaxis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    chromatin assembly ISO
    Inferred from Sequence Orthology
    more info
     
    circadian rhythm IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    endothelial cell chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    endothelial cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    eye development ISO
    Inferred from Sequence Orthology
    more info
     
    induction of positive chemotaxis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    inflammatory response to antigenic stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    lung development ISO
    Inferred from Sequence Orthology
    more info
     
    macrophage activation involved in immune response ISO
    Inferred from Sequence Orthology
    more info
     
    male-specific defense response to bacterium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    myeloid dendritic cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    myoblast proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of CD4-positive, alpha-beta T cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of DNA replication IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of RNA polymerase II transcriptional preinitiation complex assembly ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of apoptotic cell clearance ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of blood vessel endothelial cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of interferon-gamma production ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    nervous system development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    neuron projection development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    neutrophil clearance ISO
    Inferred from Sequence Orthology
    more info
     
    neutrophil clearance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    plasmacytoid dendritic cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of DNA ligation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of ERK1 and ERK2 cascade ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of JNK cascade ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of MAPK cascade ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of NIK/NF-kappaB signaling ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of activated T cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of autophagy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of cell death IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of cell proliferation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of cysteine-type endopeptidase activity involved in apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cytosolic calcium ion concentration ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of dendritic cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of glycogen catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interferon-alpha production ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interferon-beta production ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interleukin-1 beta secretion ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interleukin-1 production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of interleukin-1 secretion ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interleukin-10 production ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interleukin-12 production ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interleukin-6 production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of interleukin-6 production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of interleukin-6 production ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interleukin-6 secretion ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of interleukin-8 production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of macrophage inflammatory protein 1 alpha production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of mesenchymal cell proliferation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of mismatch repair ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of mitotic cell cycle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of monocyte chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of myeloid cell apoptotic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of myeloid cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of myoblast differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of neuron projection development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of protein phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of smooth muscle cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of sprouting angiogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of toll-like receptor 2 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of toll-like receptor 4 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of toll-like receptor 9 signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of tumor necrosis factor production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of tumor necrosis factor production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of tumor necrosis factor production ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of wound healing ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of T cell mediated immune response to tumor cell ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of T cell mediated immune response to tumor cell ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of autophagy ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of inflammatory response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of nucleotide-excision repair ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of restriction endodeoxyribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of tolerance induction ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    response to drug IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to glucocorticoid ISO
    Inferred from Sequence Orthology
    more info
     
    response to glucose IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to heat IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to insulin IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to interferon-gamma IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    response to lipopolysaccharide IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    tumor necrosis factor secretion ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    early endosome ISO
    Inferred from Sequence Orthology
    more info
     
    endoplasmic reticulum-Golgi intermediate compartment IEA
    Inferred from Electronic Annotation
    more info
     
    endosome IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
     
    membrane raft IDA
    Inferred from Direct Assay
    more info
    PubMed 
    neuron projection ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with transcriptional repressor complex ISO
    Inferred from Sequence Orthology
    more info
     
    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

    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_012963.2NP_037095.1  high mobility group protein B1

      See identical proteins and their annotated locations for NP_037095.1

      Status: PROVISIONAL

      Source sequence(s)
      BC081839
      UniProtKB/Swiss-Prot
      P63159
      UniProtKB/TrEMBL
      B4F758
      Conserved Domains (2) summary
      pfam00505
      Location:95162
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:778
      HMG_box_2; HMG-box domain

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005111.4 Reference Rnor_6.0 Primary Assembly

      Range
      7082529..7090246
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000080.1 Alternate Rn_Celera

      Range
      7732744..7737689
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Support Center