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Aliases for HMGN3 Gene

Aliases for HMGN3 Gene

  • High Mobility Group Nucleosomal Binding Domain 3 2 3 5
  • TR-Interacting Protein 7 3 4
  • TRIP7 3 4
  • Thyroid Hormone Receptor Interacting Protein 7 3
  • Thyroid Receptor-Interacting Protein 7 4
  • Thyroid Hormone Receptor Interactor 7 2
  • PNAS-24 3
  • PNAS-25 3
  • TRIP-7 4

External Ids for HMGN3 Gene

Previous HGNC Symbols for HMGN3 Gene

  • TRIP7

Previous GeneCards Identifiers for HMGN3 Gene

  • GC06M079853
  • GC06M079906
  • GC06M079967
  • GC06M077104

Summaries for HMGN3 Gene

Entrez Gene Summary for HMGN3 Gene

  • The protein encoded by this gene binds thyroid hormone receptor beta in the presence of thyroid hormone. The encoded protein, a member of the HMGN protein family, is thought to reduce the compactness of the chromatin fiber in nucleosomes, thereby enhancing transcription from chromatin templates. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. There is a related pseudogene on chromosome 1. [provided by RefSeq, Jan 2016]

GeneCards Summary for HMGN3 Gene

HMGN3 (High Mobility Group Nucleosomal Binding Domain 3) is a Protein Coding gene. GO annotations related to this gene include chromatin binding and thyroid hormone receptor binding.

UniProtKB/Swiss-Prot for HMGN3 Gene

  • Binds to nucleosomes, regulating chromatin structure and consequently, chromatin-dependent processes such as transcription, DNA replication and DNA repair. Affects both insulin and glucagon levels and modulates the expression of pancreatic genes involved in insulin secretion. Regulates the expression of the glucose transporter SLC2A2 by binding specifically to its promoter region and recruiting PDX1 and additional transcription factors. Regulates the expression of SLC6A9, a glycine transporter which regulates the glycine concentration in synaptic junctions in the central nervous system, by binding to its transcription start site. May play a role in ocular development and astrocyte function (By similarity).

Gene Wiki entry for HMGN3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HMGN3 Gene

Genomics for HMGN3 Gene

Regulatory Elements for HMGN3 Gene

Promoters for HMGN3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around HMGN3 on UCSC Golden Path with GeneCards custom track

Genomic Location for HMGN3 Gene

Chromosome:
6
Start:
79,201,245 bp from pter
End:
79,234,738 bp from pter
Size:
33,494 bases
Orientation:
Minus strand

Genomic View for HMGN3 Gene

Genes around HMGN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HMGN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HMGN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HMGN3 Gene

Proteins for HMGN3 Gene

  • Protein details for HMGN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q15651-HMGN3_HUMAN
    Recommended name:
    High mobility group nucleosome-binding domain-containing protein 3
    Protein Accession:
    Q15651
    Secondary Accessions:
    • B2RD37
    • Q5HYD3
    • Q7RTT0
    • Q969M5
    • Q9BZT7

    Protein attributes for HMGN3 Gene

    Size:
    99 amino acids
    Molecular mass:
    10666 Da
    Quaternary structure:
    • Interacts with the ligand binding domain of the thyroid receptor (TR) (in vitro). Requires the presence of thyroid hormone for its interaction. Interacts with nucleosomes.
    SequenceCaution:
    • Sequence=AAA73877.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for HMGN3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HMGN3 Gene

Proteomics data for HMGN3 Gene at MOPED

Post-translational modifications for HMGN3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for HMGN3 Gene

Domains & Families for HMGN3 Gene

Gene Families for HMGN3 Gene

Protein Domains for HMGN3 Gene

Suggested Antigen Peptide Sequences for HMGN3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q15651

UniProtKB/Swiss-Prot:

HMGN3_HUMAN :
  • Belongs to the HMGN family.
Family:
  • Belongs to the HMGN family.
genes like me logo Genes that share domains with HMGN3: view

Function for HMGN3 Gene

Molecular function for HMGN3 Gene

UniProtKB/Swiss-Prot Function:
Binds to nucleosomes, regulating chromatin structure and consequently, chromatin-dependent processes such as transcription, DNA replication and DNA repair. Affects both insulin and glucagon levels and modulates the expression of pancreatic genes involved in insulin secretion. Regulates the expression of the glucose transporter SLC2A2 by binding specifically to its promoter region and recruiting PDX1 and additional transcription factors. Regulates the expression of SLC6A9, a glycine transporter which regulates the glycine concentration in synaptic junctions in the central nervous system, by binding to its transcription start site. May play a role in ocular development and astrocyte function (By similarity).
UniProtKB/Swiss-Prot Induction:
By estrogen.

Gene Ontology (GO) - Molecular Function for HMGN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003682 chromatin binding IEA --
genes like me logo Genes that share ontologies with HMGN3: view
genes like me logo Genes that share phenotypes with HMGN3: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HMGN3 Gene

Localization for HMGN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HMGN3 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HMGN3 Gene COMPARTMENTS Subcellular localization image for HMGN3 gene
Compartment Confidence
nucleus 5
cytosol 3

Gene Ontology (GO) - Cellular Components for HMGN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA --
genes like me logo Genes that share ontologies with HMGN3: view

Pathways & Interactions for HMGN3 Gene

SuperPathways for HMGN3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HMGN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006357 regulation of transcription from RNA polymerase II promoter IEA --
GO:0008150 biological_process ND --
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IEA --
genes like me logo Genes that share ontologies with HMGN3: view

No data available for Pathways by source and SIGNOR curated interactions for HMGN3 Gene

Drugs & Compounds for HMGN3 Gene

No Compound Related Data Available

Transcripts for HMGN3 Gene

Unigene Clusters for HMGN3 Gene

High mobility group nucleosomal binding domain 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HMGN3 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c · 7d · 7e ^ 8a · 8b · 8c · 8d
SP1: - - - - - -
SP2: - - - - - -
SP3: - - - - -
SP4: - - - - - - -
SP5: - - - - - - - -
SP6: - -
SP7:
SP8: -

Relevant External Links for HMGN3 Gene

GeneLoc Exon Structure for
HMGN3
ECgene alternative splicing isoforms for
HMGN3

Expression for HMGN3 Gene

mRNA expression in normal human tissues for HMGN3 Gene

Protein differential expression in normal tissues from HIPED for HMGN3 Gene

This gene is overexpressed in Urine (28.0), Peripheral blood mononuclear cells (14.7), and Lung (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for HMGN3 Gene



SOURCE GeneReport for Unigene cluster for HMGN3 Gene Hs.77558

mRNA Expression by UniProt/SwissProt for HMGN3 Gene

Q15651-HMGN3_HUMAN
Tissue specificity: Expressed in kidney, lung, pancreas, testis, skeletal muscle, heart, thyroid gland, pituitary gland, prostate and uterus. Low expression in liver, spleen, placenta and ovaries.
genes like me logo Genes that share expression patterns with HMGN3: view

Protein tissue co-expression partners for HMGN3 Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for HMGN3 Gene

Orthologs for HMGN3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for HMGN3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HMGN3 35
  • 100 (n)
  • 100 (a)
HMGN3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia HMGN3 36
  • 92 (a)
OneToOne
dog
(Canis familiaris)
Mammalia HMGN3 36
  • 64 (a)
OneToOne
LOC611307 35
  • 96.61 (n)
  • 96.87 (a)
mouse
(Mus musculus)
Mammalia Hmgn3 36
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia HMGN3 36
  • 83 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Hmgn3 35
  • 89.25 (n)
  • 85.48 (a)
chicken
(Gallus gallus)
Aves HMGN3 36
  • 83 (a)
OneToOne
HMGN3 35
  • 84.78 (n)
  • 80.43 (a)
lizard
(Anolis carolinensis)
Reptilia HMGN3 36
  • 74 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia MGC64252 35
zebrafish
(Danio rerio)
Actinopterygii -- 35
hmgn3 35
  • 65.79 (n)
  • 64.04 (a)
hmgn3 36
  • 48 (a)
OneToOne
Species with no ortholog for HMGN3:
  • 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for HMGN3 Gene

ENSEMBL:
Gene Tree for HMGN3 (if available)
TreeFam:
Gene Tree for HMGN3 (if available)

Paralogs for HMGN3 Gene

(2) SIMAP similar genes for HMGN3 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for HMGN3 Gene

genes like me logo Genes that share paralogs with HMGN3: view

No data available for Paralogs for HMGN3 Gene

Variants for HMGN3 Gene

Sequence variations from dbSNP and Humsavar for HMGN3 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs989191 -- 79,204,239(-) ATAAA(A/C)ACCTT intron-variant
rs1414280 -- 79,219,013(+) ACTAT(A/C)taata intron-variant
rs2236543 -- 79,202,472(+) CAAAC(A/G)CAAGG intron-variant
rs2095633 -- 79,207,156(-) cttaa(C/T)tcatt intron-variant
rs4521546 -- 79,206,613(+) ctcat(A/G)gataa intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HMGN3 Gene

Variant ID Type Subtype PubMed ID
nsv830706 CNV Gain 17160897

Variation tolerance for HMGN3 Gene

Residual Variation Intolerance Score: 71.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.46; 10.10% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HMGN3 Gene

HapMap Linkage Disequilibrium report
HMGN3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HMGN3 Gene

Disorders for HMGN3 Gene

Relevant External Links for HMGN3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HMGN3

No disorders were found for HMGN3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HMGN3 Gene

Publications for HMGN3 Gene

  1. HMGN3a and HMGN3b, two protein isoforms with a tissue-specific expression pattern, expand the cellular repertoire of nucleosome- binding proteins. (PMID: 11356838) West K.L. … Bustin M. (J. Biol. Chem. 2001) 2 3 4 23 67
  2. Chromosomal proteins HMGN3a and HMGN3b regulate the expression of glycine transporter 1. (PMID: 15082770) West K.L. … Bustin M. (Mol. Cell. Biol. 2004) 3 23
  3. Two classes of proteins dependent on either the presence or absence of thyroid hormone for interaction with the thyroid hormone receptor. (PMID: 7776974) Lee J.W. … Moore D.D. (Mol. Endocrinol. 1995) 2 3
  4. The protein interaction landscape of the human CMGC kinase group. (PMID: 23602568) Varjosalo M. … Gstaiger M. (Cell Rep 2013) 3
  5. Genome-wide association study identifies HMGN3 locus for spine bone size variation in Chinese. (PMID: 21947420) Lei S.F. … Deng H.W. (Hum. Genet. 2012) 3

Products for HMGN3 Gene

Sources for HMGN3 Gene

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