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Aliases for HMGN4 Gene

Aliases for HMGN4 Gene

  • High Mobility Group Nucleosomal Binding Domain 4 2 3 5
  • High-Mobility Group (Nonhistone Chromosomal) Protein 17-Like 3 2 3
  • Non-Histone Chromosomal Protein HMG-17-Like 3 3 4
  • HMG17L3 3 4
  • NHC 3 4
  • High Mobility Group Nucleosome-Binding Domain-Containing Protein 4 3
  • High-Mobility Group Protein 17-Like 3 3
  • Non-Histone Chromosomal Protein 4
  • High Mobility Group Protein N4 3

External Ids for HMGN4 Gene

Previous HGNC Symbols for HMGN4 Gene

  • HMG17L3

Previous GeneCards Identifiers for HMGN4 Gene

  • GC06P026602
  • GC06P026646
  • GC06P026481

Summaries for HMGN4 Gene

Entrez Gene Summary for HMGN4 Gene

  • The protein encoded by this gene, 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. [provided by RefSeq, Mar 2013]

GeneCards Summary for HMGN4 Gene

HMGN4 (High Mobility Group Nucleosomal Binding Domain 4) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleosomal DNA binding. An important paralog of this gene is HMGN2.

Gene Wiki entry for HMGN4 Gene

Additional gene information for HMGN4 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HMGN4 Gene

Genomics for HMGN4 Gene

GeneHancer (GH) Regulatory Elements for HMGN4 Gene

Promoters and enhancers for HMGN4 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
GH06J026534 Promoter/Enhancer 2.6 EPDnew Ensembl ENCODE dbSUPER 668.4 -1.3 -1270 5 MLX FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 MEF2D HMGN4 PIR54163 TRR-ACG1-2 TRV-CAC1-6 LOC102724851 ABT1 BTN3A2 BTN2A1 ZNF322 BTN2A3P
GH06J027126 Promoter/Enhancer 2.6 EPDnew Ensembl ENCODE dbSUPER 77 +599.7 599678 23 CLOCK FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC GC06P027243 HIST1H4I HIST1H2BJ ZKSCAN8 ABT1 HMGN4 BTN2A2 BTN2A3P BTN2A1 ZNF322
GH06J026019 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 60.2 -510.8 -510758 16.2 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 HIST1H3B HIST1H4B HIST1H2AB ABT1 BTN2A1 BTN2A3P HMGN4 BTN2A2 ENSG00000272462 BTN3A2
GH06J026052 Promoter/Enhancer 2 Ensembl ENCODE dbSUPER 68.9 -483.0 -483041 5.7 CLOCK MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF143 SP3 GC06M026056 GC06M026057 GC06M026058 GC06M026059 GC06M026061 HIST1H1C ABT1 BTN2A1 HMGN4 BTN2A2
GH06J026120 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 48.1 -414.4 -414370 7.8 ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 SP3 NFYC SSRP1 HIST1H2AC HIST1H2BC PIR32750 PIR33095 PIR44445 ABT1 BTN2A3P HMGN4 BTN2A1 BTN2A2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HMGN4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HMGN4 gene promoter:
  • HNF-3beta
  • STAT1
  • STAT1alpha
  • STAT1beta
  • STAT2
  • STAT3
  • STAT4
  • STAT5A

Genomic Locations for HMGN4 Gene

Genomic Locations for HMGN4 Gene
chr6:26,538,344-26,546,937
(GRCh38/hg38)
Size:
8,594 bases
Orientation:
Plus strand
chr6:26,538,572-26,547,165
(GRCh37/hg19)
Size:
8,594 bases
Orientation:
Plus strand

Genomic View for HMGN4 Gene

Genes around HMGN4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HMGN4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HMGN4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HMGN4 Gene

Proteins for HMGN4 Gene

  • Protein details for HMGN4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00479-HMGN4_HUMAN
    Recommended name:
    High mobility group nucleosome-binding domain-containing protein 4
    Protein Accession:
    O00479
    Secondary Accessions:
    • B2R4I6
    • Q53XL9

    Protein attributes for HMGN4 Gene

    Size:
    90 amino acids
    Molecular mass:
    9539 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HMGN4 Gene

Post-translational modifications for HMGN4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HMGN4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HMGN4 Gene

Domains & Families for HMGN4 Gene

Gene Families for HMGN4 Gene

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

Protein Domains for HMGN4 Gene

Suggested Antigen Peptide Sequences for HMGN4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00479

UniProtKB/Swiss-Prot:

HMGN4_HUMAN :
  • Belongs to the HMGN family.
Family:
  • Belongs to the HMGN family.
genes like me logo Genes that share domains with HMGN4: view

Function for HMGN4 Gene

Phenotypes From GWAS Catalog for HMGN4 Gene

Gene Ontology (GO) - Molecular Function for HMGN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 21044950
GO:0031492 nucleosomal DNA binding IEA --
genes like me logo Genes that share ontologies with HMGN4: view
genes like me logo Genes that share phenotypes with HMGN4: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HMGN4

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HMGN4 Gene

Localization for HMGN4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HMGN4 Gene

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 HMGN4 gene
Compartment Confidence
nucleus 5

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for HMGN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000785 chromatin IEA --
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with HMGN4: view

Pathways & Interactions for HMGN4 Gene

SuperPathways for HMGN4 Gene

No Data Available

Interacting Proteins for HMGN4 Gene

Gene Ontology (GO) - Biological Process for HMGN4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for HMGN4 Gene

Drugs & Compounds for HMGN4 Gene

No Compound Related Data Available

Transcripts for HMGN4 Gene

mRNA/cDNA for HMGN4 Gene

(3) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(359) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for HMGN4 Gene

High mobility group nucleosomal binding domain 4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HMGN4

Alternative Splicing Database (ASD) splice patterns (SP) for HMGN4 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c · 5d · 5e
SP1: - -
SP2: - -
SP3: - - -
SP4: -
SP5: - - - -

Relevant External Links for HMGN4 Gene

GeneLoc Exon Structure for
HMGN4
ECgene alternative splicing isoforms for
HMGN4

Expression for HMGN4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HMGN4 Gene

Protein differential expression in normal tissues from HIPED for HMGN4 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (46.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for HMGN4 Gene



Protein tissue co-expression partners for HMGN4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of HMGN4 Gene:

HMGN4

SOURCE GeneReport for Unigene cluster for HMGN4 Gene:

Hs.236774

Evidence on tissue expression from TISSUES for HMGN4 Gene

  • Nervous system(4.8)
genes like me logo Genes that share expression patterns with HMGN4: 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 HMGN4 Gene

Orthologs for HMGN4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for HMGN4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HMGN4 34
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia HMGN4 34 33
  • 91.48 (n)
OneToMany
-- 34
  • 87 (a)
OneToMany
dog
(Canis familiaris)
Mammalia LOC100856364 33
  • 88.52 (n)
HMGN4 34
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Hmgn2 34
  • 86 (a)
OneToMany
Gm10282 34
  • 86 (a)
OneToMany
Gm16494 34
  • 80 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia HMGN4 34
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 72 (a)
OneToMany
chicken
(Gallus gallus)
Aves HMGN2 34
  • 83 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia HMGN4 34
  • 82 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia hmgn2 33
  • 71.11 (n)
Species where no ortholog for HMGN4 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)
  • zebrafish (Danio rerio)

Evolution for HMGN4 Gene

ENSEMBL:
Gene Tree for HMGN4 (if available)
TreeFam:
Gene Tree for HMGN4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for HMGN4: view image

Paralogs for HMGN4 Gene

Paralogs for HMGN4 Gene

(1) SIMAP similar genes for HMGN4 Gene using alignment to 1 proteins:

  • HMGN4_HUMAN

Pseudogenes.org Pseudogenes for HMGN4 Gene

genes like me logo Genes that share paralogs with HMGN4: view

Variants for HMGN4 Gene

Sequence variations from dbSNP and Humsavar for HMGN4 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000055525 -- 26,538,047(+) T/C upstream_transcript_variant
rs1000385579 -- 26,539,338(+) A/G genic_upstream_transcript_variant, intron_variant
rs1000728839 -- 26,540,179(+) C/G genic_upstream_transcript_variant, intron_variant
rs1000756525 -- 26,538,772(+) C/A genic_upstream_transcript_variant, intron_variant
rs1001050671 -- 26,546,524(+) A/T 3_prime_UTR_variant

Variation tolerance for HMGN4 Gene

Residual Variation Intolerance Score: 71.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.41; 42.59% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HMGN4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HMGN4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for HMGN4 Gene

Disorders for HMGN4 Gene

Additional Disease Information for HMGN4

No disorders were found for HMGN4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HMGN4 Gene

Publications for HMGN4 Gene

  1. HMGN4, a newly discovered nucleosome-binding protein encoded by an intronless gene. (PMID: 11410162) Birger Y … Bustin M (DNA and cell biology 2001) 2 3 22 58
  2. A 1.1-Mb transcript map of the hereditary hemochromatosis locus. (PMID: 9149941) Ruddy DA … Feder JN (Genome research 1997) 2 3 4 58
  3. Serine ADP-Ribosylation Depends on HPF1. (PMID: 28190768) Bonfiglio JJ … Matic I (Molecular cell 2017) 3 4 58
  4. 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
  5. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall AJ … Beck S (Nature 2003) 3 4 58

Products for HMGN4 Gene

Sources for HMGN4 Gene

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