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

Gene ID: 25459, updated on 27-Nov-2024

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, Nov 2024]
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

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC93598, MGC93599

Gene Ontology Provided by RGD

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

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)

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_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
  2. XM_063271080.1XP_063127150.1  high mobility group protein B1 isoform X1

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