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Aliases for HMGXB3 Gene

Aliases for HMGXB3 Gene

  • HMG-Box Containing 3 2 3 5
  • HMG Box Domain Containing 3 2 3
  • SMF 3 4
  • HMG Domain-Containing Protein 3 3
  • HMG Box-Containing Protein 3 4
  • Protein SMF 4
  • KIAA0194 4
  • HMGX3 3

External Ids for HMGXB3 Gene

Previous HGNC Symbols for HMGXB3 Gene

  • HMGX3

Previous GeneCards Identifiers for HMGXB3 Gene

  • GC05P149361
  • GC05P144528

Summaries for HMGXB3 Gene

Entrez Gene Summary for HMGXB3 Gene

  • This gene is one of the non-canonical high mobility group (HMG) genes. The encoded protein contains an HMG-box domain found in DNA binding proteins such as transcription factors and chromosomal proteins. [provided by RefSeq, Aug 2011]

GeneCards Summary for HMGXB3 Gene

HMGXB3 (HMG-Box Containing 3) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include kinase activity.

Additional gene information for HMGXB3 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HMGXB3 Gene

Genomics for HMGXB3 Gene

GeneHancer (GH) Regulatory Elements for HMGXB3 Gene

Promoters and enhancers for HMGXB3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05J149999 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 683.2 +1.0 1024 3.5 CLOCK ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 HMGXB3 TIGD6 TCOF1 ZNF300P1 ZNF300 RPS20P4 RPL7P1 RBM22 CAMK2A
GH05J149956 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 71.1 -40.4 -40397 6.7 HDGF PKNOX1 CLOCK SMAD1 FOXA2 MLX ZFP64 ARID4B SIN3A FEZF1 SLC26A2 PDE6A HMGXB3 TCOF1 TIGD6 ZNF300 RPL7P1 CSNK1A1 ZNF300P1 PDGFRB
GH05J149449 Enhancer 1.8 FANTOM5 Ensembl ENCODE dbSUPER 108.9 -546.6 -546579 8.5 MLX ZFP64 YBX1 DMAP1 SLC30A9 ZNF213 E2F8 MCM3 ZC3H11A MEF2D HMGXB3 TCOF1 TIGD6 RPL7P1 CARMN CSNK1A1 PDGFRB RPS14 RPS20P4 ARHGEF37
GH05J150447 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 80.9 +448.9 448907 3.4 CLOCK DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 MEF2D ZNF610 RPS14 GC05P150449 HMGXB3 TCOF1 RBM22 ZNF300 RPL7P1 TIGD6 GC05M150442
GH05J150904 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 51.3 +905.0 904955 1.6 HDGF ARNT ARID4B SIN3A DMAP1 YY1 POLR2B ZNF766 SP3 NFYC ZNF300 ZNF300P1 HMGXB3 TCOF1 G3BP1 IRGM SMIM3 RBM22 CCDC69 TIGD6
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HMGXB3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HMGXB3 gene promoter:
  • PPAR-alpha
  • Arnt
  • AhR
  • Evi-1
  • CUTL1
  • Sox9
  • AP-4
  • AML1a
  • AP-2alphaA
  • AP-2alpha isoform 2

Genomic Locations for HMGXB3 Gene

Genomic Locations for HMGXB3 Gene
53,098 bases
Plus strand
52,823 bases
Plus strand

Genomic View for HMGXB3 Gene

Genes around HMGXB3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HMGXB3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HMGXB3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HMGXB3 Gene

Proteins for HMGXB3 Gene

  • Protein details for HMGXB3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    HMG domain-containing protein 3
    Protein Accession:
    Secondary Accessions:
    • G5E9Y4
    • Q86UG3
    • Q9UMF4

    Protein attributes for HMGXB3 Gene

    1538 amino acids
    Molecular mass:
    168334 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for HMGXB3 Gene


neXtProt entry for HMGXB3 Gene

Post-translational modifications for HMGXB3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HMGXB3 Gene

No data available for DME Specific Peptides for HMGXB3 Gene

Domains & Families for HMGXB3 Gene

Gene Families for HMGXB3 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for HMGXB3 Gene


Suggested Antigen Peptide Sequences for HMGXB3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with HMGXB3: view

No data available for UniProtKB/Swiss-Prot for HMGXB3 Gene

Function for HMGXB3 Gene

Phenotypes From GWAS Catalog for HMGXB3 Gene

Gene Ontology (GO) - Molecular Function for HMGXB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0016301 kinase activity NAS 9027509
genes like me logo Genes that share ontologies with HMGXB3: view
genes like me logo Genes that share phenotypes with HMGXB3: view

Animal Models for HMGXB3 Gene

MGI Knock Outs for HMGXB3:
  • Hmgxb3 Hmgxb3<tm1a(EUCOMM)Wtsi>

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HMGXB3 Gene

Localization for HMGXB3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HMGXB3 Gene

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HMGXB3 gene
Compartment Confidence
nucleus 5

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for HMGXB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with HMGXB3: view

Pathways & Interactions for HMGXB3 Gene

SuperPathways for HMGXB3 Gene

No Data Available

Interacting Proteins for HMGXB3 Gene

Gene Ontology (GO) - Biological Process for HMGXB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
GO:0016310 phosphorylation IEA --
genes like me logo Genes that share ontologies with HMGXB3: view

No data available for Pathways by source and SIGNOR curated interactions for HMGXB3 Gene

Drugs & Compounds for HMGXB3 Gene

No Compound Related Data Available

Transcripts for HMGXB3 Gene

mRNA/cDNA for HMGXB3 Gene

(2) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(6) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for HMGXB3 Gene

HMG box domain containing 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HMGXB3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b · 10c ^ 11 ^ 12a · 12b ^ 13 ^ 14a · 14b ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19a · 19b ^
SP1: - - -
SP2: - - - - -
SP3: - - -

ExUns: 20

Relevant External Links for HMGXB3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HMGXB3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HMGXB3 Gene

Protein differential expression in normal tissues from HIPED for HMGXB3 Gene

This gene is overexpressed in Tlymphocyte (47.4) and Adipocyte (16.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for HMGXB3 Gene

Protein tissue co-expression partners for HMGXB3 Gene

NURSA nuclear receptor signaling pathways regulating expression of HMGXB3 Gene:


SOURCE GeneReport for Unigene cluster for HMGXB3 Gene:


Evidence on tissue expression from TISSUES for HMGXB3 Gene

  • Bone marrow(4.2)
  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with HMGXB3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HMGXB3 Gene

Orthologs for HMGXB3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for HMGXB3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia HMGXB3 34 33
  • 99.74 (n)
(Bos Taurus)
Mammalia HMGXB3 34 33
  • 91.48 (n)
(Canis familiaris)
Mammalia HMGXB3 34 33
  • 91.41 (n)
(Mus musculus)
Mammalia Hmgxb3 16 34 33
  • 87.73 (n)
(Monodelphis domestica)
Mammalia HMGXB3 34
  • 78 (a)
(Ornithorhynchus anatinus)
Mammalia oan-mir-1413 34
  • 74 (a)
(Gallus gallus)
Aves HMGXB3 34 33
  • 71.68 (n)
(Anolis carolinensis)
Reptilia HMGXB3 34
  • 67 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia hmgxb3 33
  • 63.73 (n)
(Danio rerio)
Actinopterygii LOC101886434 33
  • 54.82 (n)
  • 44 (a)
Species where no ortholog for HMGXB3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for HMGXB3 Gene

Gene Tree for HMGXB3 (if available)
Gene Tree for HMGXB3 (if available)
Evolutionary constrained regions (ECRs) for HMGXB3: view image

Paralogs for HMGXB3 Gene

No data available for Paralogs for HMGXB3 Gene

Variants for HMGXB3 Gene

Sequence variations from dbSNP and Humsavar for HMGXB3 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs13117 benign, Hereditary diffuse leukoencephalopathy with spheroids 150,053,557(+) A/G downstream_transcript_variant
rs138905856 likely-benign, Hereditary diffuse leukoencephalopathy with spheroids 150,053,569(+) G/A downstream_transcript_variant
rs150244467 likely-benign, Hereditary diffuse leukoencephalopathy with spheroids 150,053,465(+) T/C downstream_transcript_variant
rs367836988 likely-benign, Hereditary diffuse leukoencephalopathy with spheroids 150,053,538(+) G/A downstream_transcript_variant
rs371174880 likely-benign, Hereditary diffuse leukoencephalopathy with spheroids 150,053,295(+) T/C downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for HMGXB3 Gene

Variant ID Type Subtype PubMed ID
esv24664 CNV gain+loss 19812545
nsv830518 CNV loss 17160897
nsv968262 CNV duplication 23825009

Variation tolerance for HMGXB3 Gene

Gene Damage Index Score: 6.48; 77.50% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HMGXB3 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HMGXB3 Gene

Disorders for HMGXB3 Gene

Additional Disease Information for HMGXB3

No disorders were found for HMGXB3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HMGXB3 Gene

Publications for HMGXB3 Gene

  1. Prediction of the coding sequences of unidentified human genes. V. The coding sequences of 40 new genes (KIAA0161-KIAA0200) deduced by analysis of cDNA clones from human cell line KG-1. (PMID: 8724849) Nagase T … Nomura N (DNA research : an international journal for rapid publication of reports on genes and genomes 1996) 2 3 4 58
  2. Common genetic variation and the control of HIV-1 in humans. (PMID: 20041166) Fellay J … NIAID Center for HIV/AIDS Vaccine Immunology (CHAVI) (PLoS genetics 2009) 3 44 58
  3. Sequence analysis of two genomic regions containing the KIT and the FMS receptor tyrosine kinase genes. (PMID: 9027509) Andre C … Galibert F (Genomics 1997) 3 4 58
  4. A directed protein interaction network for investigating intracellular signal transduction. (PMID: 21900206) Vinayagam A … Wanker EE (Science signaling 2011) 3 58
  5. Toward a confocal subcellular atlas of the human proteome. (PMID: 18029348) Barbe L … Andersson-Svahn H (Molecular & cellular proteomics : MCP 2008) 3 58

Products for HMGXB3 Gene

Sources for HMGXB3 Gene

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