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Aliases for HMGB3 Gene

Aliases for HMGB3 Gene

  • High Mobility Group Box 3 2 3
  • HMG2A 3 4 6
  • HMG4 3 4 6
  • High-Mobility Group (Nonhistone Chromosomal) Protein 4 2 3
  • High Mobility Group Protein 2a 3 4
  • HMG-2a 3 4
  • HMG-4 3 4
  • Non-Histone Chromosomal Protein 2
  • High Mobility Group Protein B3 3
  • High Mobility Group Protein 4 4
  • High-Mobility Group Box 3 2

External Ids for HMGB3 Gene

Previous Symbols for HMGB3 Gene

  • HMG4

Summaries for HMGB3 Gene

Entrez Gene Summary for HMGB3 Gene

  • This gene encodes a member of a family of proteins containing one or more high mobility group DNA-binding motifs. The encoded protein plays an important role in maintaining stem cell populations, and may be aberrantly expressed in tumor cells. A mutation in this gene was associated with microphthalmia, syndromic 13. There are numerous pseudogenes of this gene on multiple chromosomes. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]

GeneCards Summary for HMGB3 Gene

HMGB3 (High Mobility Group Box 3) is a Protein Coding gene. Diseases associated with HMGB3 include microphthalmia, syndromic 13 and terminal osseous dysplasia. GO annotations related to this gene include double-stranded DNA binding and DNA binding, bending. An important paralog of this gene is HMGB4.

UniProtKB/Swiss-Prot for HMGB3 Gene

  • Binds preferentially single-stranded DNA and unwinds double-stranded DNA.

Gene Wiki entry for HMGB3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HMGB3 Gene

Genomics for HMGB3 Gene

Genomic Location for HMGB3 Gene

150,980,509 bp from pter
150,990,775 bp from pter
10,267 bases
Plus strand

Genomic View for HMGB3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HMGB3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HMGB3 Gene

Regulatory Elements for HMGB3 Gene

Proteins for HMGB3 Gene

  • Protein details for HMGB3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    High mobility group protein B3
    Protein Accession:
    Secondary Accessions:
    • O95556
    • Q6NS40

    Protein attributes for HMGB3 Gene

    200 amino acids
    Molecular mass:
    22980 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for HMGB3 Gene

neXtProt entry for HMGB3 Gene

Proteomics data for HMGB3 Gene at MOPED

Post-translational modifications for HMGB3 Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys112

No data available for DME Specific Peptides for HMGB3 Gene

Domains for HMGB3 Gene

Gene Families for HMGB3 Gene

  • HMG :High-mobility group / Canonical

Protein Domains for HMGB3 Gene


  • Contains 2 HMG box DNA-binding domains.:
    • O15347
  • Belongs to the HMGB family.:
    • O15347
genes like me logo Genes that share domains with HMGB3: view

Function for HMGB3 Gene

Molecular function for HMGB3 Gene

UniProtKB/Swiss-Prot Function: Binds preferentially single-stranded DNA and unwinds double-stranded DNA.

Gene Ontology (GO) - Molecular Function for HMGB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding --
GO:0003682 chromatin binding IBA --
GO:0003690 double-stranded DNA binding ISS --
GO:0005515 protein binding IPI 25416956
GO:0008301 DNA binding, bending ISS --
genes like me logo Genes that share ontologies with HMGB3: view

Phenotypes for HMGB3 Gene

genes like me logo Genes that share phenotypes with HMGB3: view

Animal Models for HMGB3 Gene

MGI Knock Outs for HMGB3:

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for HMGB3 Gene

Localization for HMGB3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HMGB3 Gene

Nucleus. Chromosome.

Subcellular locations from

Jensen Localization Image for HMGB3 Gene COMPARTMENTS Subcellular localization image for HMGB3 gene
Compartment Confidence
nucleus 3

Gene Ontology (GO) - Cellular Components for HMGB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
GO:0005694 chromosome IEA --
genes like me logo Genes that share ontologies with HMGB3: view

Pathways for HMGB3 Gene

SuperPathways for HMGB3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HMGB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006310 DNA recombination ISS --
GO:0006338 chromatin remodeling IBA --
GO:0006355 regulation of transcription, DNA-templated IBA --
GO:0007275 multicellular organismal development TAS 9598312
GO:0045578 negative regulation of B cell differentiation IEA --
genes like me logo Genes that share ontologies with HMGB3: view

No data available for Pathways by source for HMGB3 Gene

Transcripts for HMGB3 Gene

Unigene Clusters for HMGB3 Gene

High mobility group box 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HMGB3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b

Relevant External Links for HMGB3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HMGB3 Gene

mRNA expression in normal human tissues for HMGB3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HMGB3 Gene

This gene is overexpressed in Liver (6.7).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for HMGB3 Gene

SOURCE GeneReport for Unigene cluster for HMGB3 Gene Hs.19114

mRNA Expression by UniProt/SwissProt for HMGB3 Gene

Tissue specificity: Expressed predominantly in placenta
genes like me logo Genes that share expressions with HMGB3: view

Orthologs for HMGB3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for HMGB3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia HMGB3 36
  • 99.83 (n)
  • 100 (a)
HMGB3 37
  • 100 (a)
(Bos Taurus)
Mammalia HMGB3 36
  • 90.67 (n)
  • 97.62 (a)
HMGB3 37
  • 82 (a)
(Canis familiaris)
Mammalia HMGB3 36
  • 91.67 (n)
  • 98.21 (a)
HMGB3 37
  • 89 (a)
(Mus musculus)
Mammalia Gm6104 37
  • 97 (a)
Hmgb3 16
Hmgb3 37
  • 98 (a)
(Monodelphis domestica)
Mammalia HMGB3 37
  • 93 (a)
(Ornithorhynchus anatinus)
Mammalia HMGB3 37
  • 94 (a)
(Rattus norvegicus)
Mammalia LOC688583 36
  • 87.9 (n)
  • 92.26 (a)
(Gallus gallus)
Aves HMGB3 36
  • 84.33 (n)
  • 94.64 (a)
HMGB3 37
  • 87 (a)
(Anolis carolinensis)
Reptilia HMGB3 37
  • 83 (a)
African clawed frog
(Xenopus laevis)
Amphibia hmgb3-prov 36
tropical clawed frog
(Silurana tropicalis)
Amphibia hmgb3 36
  • 80.24 (n)
  • 91.02 (a)
Str.2163 36
(Danio rerio)
Actinopterygii hmgb3a 37
  • 65 (a)
hmgb3b 37
  • 65 (a)
fruit fly
(Drosophila melanogaster)
Insecta Dsp1 37
  • 24 (a)
(Caenorhabditis elegans)
Secernentea hmg-1.1 37
  • 51 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes IXR1 39
NHP6A 37
  • 46 (a)
NHP6B 37
  • 42 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.2712 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3845 37
  • 15 (a)
Species with no ortholog for HMGB3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for HMGB3 Gene

Gene Tree for HMGB3 (if available)
Gene Tree for HMGB3 (if available)

Paralogs for HMGB3 Gene

Paralogs for HMGB3 Gene

Selected SIMAP similar genes for HMGB3 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with HMGB3: view

Variants for HMGB3 Gene

Sequence variations from dbSNP and Humsavar for HMGB3 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type MAF
rs1324 -- 150,988,555(-) AAAAA(A/T)ATTCT utr-variant-3-prime
rs171088 -- 150,984,394(-) GCGGC(A/G)AACAA intron-variant, upstream-variant-2KB
rs237377 -- 150,987,556(+) ATAGT(C/G)CTACT intron-variant
rs237401 -- 150,980,395(+) CCTCC(A/G)TTGGT upstream-variant-2KB
rs237402 -- 150,980,838(+) TGCTG(C/T)TTGTG intron-variant

Relevant External Links for HMGB3 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Structural Variations from Database of Genomic Variants (DGV) for HMGB3 Gene

Disorders for HMGB3 Gene


  • Microphthalmia, syndromic, 13 (MCOPS13) [MIM:300915]: A form of microphthalmia, a disorder of eye formation, ranging from small size of a single eye to complete bilateral absence of ocular tissues (anophthalmia). In many cases, microphthalmia/anophthalmia occurs in association with syndromes that include non-ocular abnormalities. MCOPS13 patients exhibit colobomatous microphthalmia with microcephaly, short stature, and psychomotor retardation. {ECO:0000269 PubMed:24993872}. Note=The disease is caused by mutations affecting the gene represented in this entry.
genes like me logo Genes that share disorders with HMGB3: view

Publications for HMGB3 Gene

  1. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross M.T. … Bentley D.R. (Nature 2005) 3 4
  2. Isolation of human and mouse HMG2a cDNAs: evidence for an HMG2a- specific 3' untranslated region. (PMID: 9370291) Wilke K. … Poustka A. (Gene 1997) 3 4
  3. Hmg4, a new member of the Hmg1/2 gene family. (PMID: 9598312) Vaccari T. … Bianchi M.E. (Genomics 1998) 2 3
  4. Identification of an HMGB3 Frameshift Mutation in a Family With an X-linked Colobomatous Microphthalmia Syndrome Using Whole-Genome and X-Exome Sequencing. (PMID: 24993872) Scott A.F. … Jabs E.W. (JAMA Ophthalmol 2014) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for HMGB3 Gene

Sources for HMGB3 Gene

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