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Aliases for HMGB4 Gene

Aliases for HMGB4 Gene

  • High Mobility Group Box 4 2 3 5
  • High Mobility Group Protein B4 3
  • High-Mobility Group Box 4 2
  • DJ1007G16.5 3
  • HMG2 Like 3

External Ids for HMGB4 Gene

Previous GeneCards Identifiers for HMGB4 Gene

  • GC01P033996
  • GC01P034098
  • GC01P034326
  • GC01P032442

Summaries for HMGB4 Gene

GeneCards Summary for HMGB4 Gene

HMGB4 (High Mobility Group Box 4) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include chromatin binding. An important paralog of this gene is HMGB2.

Gene Wiki entry for HMGB4 Gene

Additional gene information for HMGB4 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HMGB4 Gene

Genomics for HMGB4 Gene

GeneHancer (GH) Regulatory Elements for HMGB4 Gene

Promoters and enhancers for HMGB4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01I033864 Promoter 0.6 EPDnew 550.8 +3.6 3585 0.1 ATF2 HMGB4 CSMD2-AS1 CSMD2
GH01I033903 Enhancer 0.6 FANTOM5 21.9 +42.9 42944 0.3 ZNF316 JUND ATF3 MAFG HNF4A NFE2 YY1 HMGB4 CSMD2-AS1 GC01M033889 GC01P033929 CSMD2
GH01I033996 Enhancer 0.2 FANTOM5 2.6 +136.6 136564 0.4 CSMD2 HMGB4 GC01M033964 GC01M034025
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around HMGB4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HMGB4 gene promoter:

Genomic Locations for HMGB4 Gene

Genomic Locations for HMGB4 Gene
chr1:33,860,475-33,864,791
(GRCh38/hg38)
Size:
4,317 bases
Orientation:
Plus strand
chr1:34,326,076-34,330,392
(GRCh37/hg19)

Genomic View for HMGB4 Gene

Genes around HMGB4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HMGB4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HMGB4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HMGB4 Gene

Proteins for HMGB4 Gene

  • Protein details for HMGB4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WW32-HMGB4_HUMAN
    Recommended name:
    High mobility group protein B4
    Protein Accession:
    Q8WW32
    Secondary Accessions:
    • B2R4X7
    • Q0QWA4

    Protein attributes for HMGB4 Gene

    Size:
    186 amino acids
    Molecular mass:
    22490 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HMGB4 Gene

Post-translational modifications for HMGB4 Gene

No Post-translational modifications

Other Protein References for HMGB4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HMGB4 Gene

Domains & Families for HMGB4 Gene

Gene Families for HMGB4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for HMGB4 Gene

Graphical View of Domain Structure for InterPro Entry

Q8WW32

UniProtKB/Swiss-Prot:

HMGB4_HUMAN :
  • Belongs to the HMGB family.
Family:
  • Belongs to the HMGB family.
genes like me logo Genes that share domains with HMGB4: view

Function for HMGB4 Gene

Gene Ontology (GO) - Molecular Function for HMGB4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with HMGB4: view
genes like me logo Genes that share phenotypes with HMGB4: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for HMGB4 Gene

Localization for HMGB4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HMGB4 Gene

Nucleus. Chromosome.

Subcellular locations from

COMPARTMENTS
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 HMGB4 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for HMGB4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,HDA 21630459
GO:0005694 chromosome IEA --
genes like me logo Genes that share ontologies with HMGB4: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for HMGB4 Gene

Pathways & Interactions for HMGB4 Gene

SuperPathways for HMGB4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HMGB4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for HMGB4 Gene

Drugs & Compounds for HMGB4 Gene

No Compound Related Data Available

Transcripts for HMGB4 Gene

Unigene Clusters for HMGB4 Gene

High mobility group box 4:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HMGB4 Gene

No ASD Table

Relevant External Links for HMGB4 Gene

GeneLoc Exon Structure for
HMGB4
ECgene alternative splicing isoforms for
HMGB4

Expression for HMGB4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HMGB4 Gene

mRNA differential expression in normal tissues according to GTEx for HMGB4 Gene

This gene is overexpressed in Testis (x52.6).

Protein differential expression in normal tissues from HIPED for HMGB4 Gene

This gene is overexpressed in Testis (50.9) and Ovary (18.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for HMGB4 Gene



Protein tissue co-expression partners for HMGB4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of HMGB4 Gene:

HMGB4

SOURCE GeneReport for Unigene cluster for HMGB4 Gene:

Hs.568628
genes like me logo Genes that share expression patterns with HMGB4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for HMGB4 Gene

Orthologs for HMGB4 Gene

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

Orthologs for HMGB4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HMGB4 33
  • 98.75 (n)
cow
(Bos Taurus)
Mammalia HMGB4 33 34
  • 86.96 (n)
dog
(Canis familiaris)
Mammalia HMGB4 33 34
  • 82.87 (n)
mouse
(Mus musculus)
Mammalia Hmgb4 33 16 34
  • 78.97 (n)
rat
(Rattus norvegicus)
Mammalia Hmgb4 33
  • 77.44 (n)
oppossum
(Monodelphis domestica)
Mammalia HMGB4 34
  • 54 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 21 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii hmgb2b 34
  • 31 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta Dsp1 34
  • 15 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea hmg-1.1 34
  • 32 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NHP6A 34
  • 33 (a)
ManyToMany
NHP6B 34
  • 32 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3845 34
  • 12 (a)
OneToMany
Species where no ortholog for HMGB4 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • 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)
  • lizard (Anolis carolinensis)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for HMGB4 Gene

ENSEMBL:
Gene Tree for HMGB4 (if available)
TreeFam:
Gene Tree for HMGB4 (if available)

Paralogs for HMGB4 Gene

Paralogs for HMGB4 Gene

(9) SIMAP similar genes for HMGB4 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with HMGB4: view

Variants for HMGB4 Gene

Sequence variations from dbSNP and Humsavar for HMGB4 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000455122 -- 33,862,573(+) G/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1001379989 -- 33,859,571(+) A/G upstream_transcript_variant
rs1002234808 -- 33,864,391(+) A/T coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs1002952576 -- 33,861,473(+) A/C genic_upstream_transcript_variant, intron_variant
rs1003016296 -- 33,860,861(+) T/C 5_prime_UTR_variant, genic_upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for HMGB4 Gene

Variant ID Type Subtype PubMed ID
esv34112 CNV loss 18971310
esv3585686 CNV gain 21293372
nsv834624 CNV loss 17160897

Variation tolerance for HMGB4 Gene

Residual Variation Intolerance Score: 78.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.07; 37.86% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HMGB4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HMGB4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HMGB4 Gene

Disorders for HMGB4 Gene

Additional Disease Information for HMGB4

No disorders were found for HMGB4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HMGB4 Gene

Publications for HMGB4 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T … Vidal M (Cell 2014) 3 58
  4. Convergent animal and human evidence suggests a role of PPM1A gene in response to antidepressants. (PMID: 20970119) Malki K … Schalkwyk LC (Biological psychiatry 2011) 3 58
  5. Protein array based interactome analysis of amyloid-β indicates an inhibition of protein translation. (PMID: 21244100) Virok DP … Fülöp L (Journal of proteome research 2011) 3 58

Products for HMGB4 Gene

Sources for HMGB4 Gene

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