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Aliases for HDGF Gene

Aliases for HDGF Gene

  • Hepatoma-Derived Growth Factor 2 3 5
  • High Mobility Group Protein 1-Like 2 3 4
  • HMG1L2 3 4
  • Hepatoma-Derived Growth Factor (High-Mobility Group Protein 1-Like) 2
  • High-Mobility Group Protein 1-Like 2
  • HMG-1L2 4

External Ids for HDGF Gene

Previous GeneCards Identifiers for HDGF Gene

  • GC01M154581
  • GC01M152477
  • GC01M153489
  • GC01M153928
  • GC01M153524
  • GC01M154978
  • GC01M156711
  • GC01M128069

Summaries for HDGF Gene

Entrez Gene Summary for HDGF Gene

  • This gene encodes a member of the hepatoma-derived growth factor family. The encoded protein has mitogenic and DNA-binding activity and may play a role in cellular proliferation and differentiation. High levels of expression of this gene enhance the growth of many tumors. This gene was thought initially to be located on chromosome X; however, that location has been determined to correspond to a related pseudogene. Alternatively spliced transcript variants encoding distinct isoforms have been described. [provided by RefSeq, Jan 2016]

GeneCards Summary for HDGF Gene

HDGF (Hepatoma-Derived Growth Factor) is a Protein Coding gene. Diseases associated with HDGF include Lung Cancer and Hepatocellular Carcinoma. Among its related pathways are Activation of cAMP-Dependent PKA and GPCR Pathway. GO annotations related to this gene include poly(A) RNA binding and growth factor activity. An important paralog of this gene is HDGFL1.

UniProtKB/Swiss-Prot for HDGF Gene

  • Heparin-binding protein, with mitogenic activity for fibroblasts. Acts as a transcriptional repressor.

Gene Wiki entry for HDGF Gene

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

Genomics for HDGF Gene

Regulatory Elements for HDGF Gene

Enhancers for HDGF Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01F156807 0.5 ENCODE 22.5 -41.3 -41263 1.6 ZNF146 PKNOX1 ZEB2 EBF1 ZNF316 ZBTB48 IKZF1 PRDM10 PRDM1 HDGF MRPL24 INSRR PEAR1 LRRC71 ISG20L2 RRNAD1 MIR765 ARHGEF11 GC01P156814
GH01F156740 1.1 FANTOM5 ENCODE 12.6 +20.1 20063 13.6 CREB3L1 MLX DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC TBX21 RRNAD1 KIAA0907 LOC246784 SSR2 PEAR1 HDGF ETV3 LOC105371454 GLMP RIT1
GH01F156725 0.2 ENCODE 12.4 +39.1 39138 5.1 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 ZNF207 LOC246784 HDGF KIAA0907 MRPL24 RRNAD1 PIR61627
GH01F156755 0.5 Ensembl 12.3 +11.6 11625 0.2 TBP ZNF175 BACH1 ZNF644 ZEB1 ZNF121 POLR3A ZNF584 ZEB2 GTF2A2 HDGF ISG20L2 RRNAD1 LOC105371454 PRCC
GH01F156765 1 Ensembl ENCODE 11.7 -1.0 -1021 4.5 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 RRNAD1 PEAR1 KIAA0907 MRPL24 ENSG00000229961 ENSG00000233712 LRRC71 TSACC LOC246784 HDGF
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around HDGF on UCSC Golden Path with GeneCards custom track

Promoters for HDGF Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001525062 -1075 3600 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A FEZF1 DMAP1

Genomic Location for HDGF Gene

Chromosome:
1
Start:
156,742,107 bp from pter
End:
156,766,925 bp from pter
Size:
24,819 bases
Orientation:
Minus strand

Genomic View for HDGF Gene

Genes around HDGF on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for HDGF Gene

Proteins for HDGF Gene

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

    Protein Symbol:
    P51858-HDGF_HUMAN
    Recommended name:
    Hepatoma-derived growth factor
    Protein Accession:
    P51858
    Secondary Accessions:
    • B3KU21
    • D3DVC9
    • Q5SZ07
    • Q5SZ08
    • Q5SZ09

    Protein attributes for HDGF Gene

    Size:
    240 amino acids
    Molecular mass:
    26788 Da
    Quaternary structure:
    • Monomer, and domain-swapped homodimer.

    Three dimensional structures from OCA and Proteopedia for HDGF Gene

    Alternative splice isoforms for HDGF Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HDGF Gene

Post-translational modifications for HDGF Gene

  • Sumoylated with SUMO1. Sumoylation prevents binding to chromatin.
  • Ubiquitination at Lys 11 and Lys 80
  • Modification sites at PhosphoSitePlus

Antibody Products

No data available for DME Specific Peptides for HDGF Gene

Domains & Families for HDGF Gene

Gene Families for HDGF Gene

Protein Domains for HDGF Gene

InterPro:
Blocks:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

P51858

UniProtKB/Swiss-Prot:

HDGF_HUMAN :
  • The PWWP domain harbors the heparin-binding sites and is responsible for DNA-binding, while the C-terminal region is essentially unstructured.
  • Belongs to the HDGF family.
Domain:
  • The PWWP domain harbors the heparin-binding sites and is responsible for DNA-binding, while the C-terminal region is essentially unstructured.
  • Contains 1 PWWP domain.
Family:
  • Belongs to the HDGF family.
genes like me logo Genes that share domains with HDGF: view

Function for HDGF Gene

Molecular function for HDGF Gene

GENATLAS Biochemistry:
hepatoma-derived growth factor,with mitogenic activity for fibroblasts,expressed (in mice) predominantly in testis and skeletal muscle,to intermediate extents in heart,brain,lung,liver,kidney
UniProtKB/Swiss-Prot Function:
Heparin-binding protein, with mitogenic activity for fibroblasts. Acts as a transcriptional repressor.

Gene Ontology (GO) - Molecular Function for HDGF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0001106 RNA polymerase II transcription corepressor activity IDA 19162039
GO:0001222 transcription corepressor binding IPI 19162039
GO:0003677 DNA binding IEA --
GO:0008083 growth factor activity IEA --
genes like me logo Genes that share ontologies with HDGF: view
genes like me logo Genes that share phenotypes with HDGF: view

Animal Models for HDGF Gene

MGI Knock Outs for HDGF:

Animal Model Products

miRNA for HDGF Gene

miRTarBase miRNAs that target HDGF

Flow Cytometry Products

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

Localization for HDGF Gene

Subcellular locations from UniProtKB/Swiss-Prot for HDGF Gene

Cytoplasm. Nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HDGF Gene COMPARTMENTS Subcellular localization image for HDGF gene
Compartment Confidence
nucleus 5
extracellular 4
cytosol 2
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for HDGF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IDA,TAS 20551380
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IEA,TAS --
GO:0017053 transcriptional repressor complex IDA 19162039
genes like me logo Genes that share ontologies with HDGF: view

Pathways & Interactions for HDGF Gene

genes like me logo Genes that share pathways with HDGF: view

Gene Ontology (GO) - Biological Process for HDGF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA 19162039
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007165 signal transduction NAS 7929202
GO:0008283 cell proliferation TAS 7929202
genes like me logo Genes that share ontologies with HDGF: view

No data available for SIGNOR curated interactions for HDGF Gene

Drugs & Compounds for HDGF Gene

(2) Drugs for HDGF Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Heparin Approved, Investigational Pharma Antagonist 812,256

(2) Additional Compounds for HDGF Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with HDGF: view

Transcripts for HDGF Gene

Unigene Clusters for HDGF Gene

Hepatoma-derived growth factor:
Representative Sequences:

Flow Cytometry Products

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

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7
SP1: - -
SP2: - -
SP3:
SP4: -
SP5: -

Relevant External Links for HDGF Gene

GeneLoc Exon Structure for
HDGF
ECgene alternative splicing isoforms for
HDGF

Expression for HDGF Gene

mRNA expression in normal human tissues for HDGF Gene

Protein differential expression in normal tissues from HIPED for HDGF Gene

This gene is overexpressed in Nasal epithelium (7.7).

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



Protein tissue co-expression partners for HDGF Gene

NURSA nuclear receptor signaling pathways regulating expression of HDGF Gene:

HDGF

SOURCE GeneReport for Unigene cluster for HDGF Gene:

Hs.743948

mRNA Expression by UniProt/SwissProt for HDGF Gene:

P51858-HDGF_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with HDGF: view

Primer Products

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

Orthologs for HDGF Gene

This gene was present in the common ancestor of animals.

Orthologs for HDGF Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HDGF 34 35
  • 98.75 (n)
cow
(Bos Taurus)
Mammalia HDGF 34 35
  • 91.63 (n)
dog
(Canis familiaris)
Mammalia HDGF 34 35
  • 89.9 (n)
rat
(Rattus norvegicus)
Mammalia Hdgf 34
  • 87.62 (n)
mouse
(Mus musculus)
Mammalia Hdgf 34 16 35
  • 86.78 (n)
oppossum
(Monodelphis domestica)
Mammalia HDGF 35
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 9 (a)
ManyToMany
chicken
(Gallus gallus)
Aves HDGF 34
  • 77.89 (n)
-- 35
  • 63 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 60 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia hdgf 34
  • 65.87 (n)
zebrafish
(Danio rerio)
Actinopterygii si:ch211-116m6.3 35
  • 4 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta CG7946 35
  • 12 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea C06A5.3 35
  • 7 (a)
OneToMany
Species where no ortholog for HDGF 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)
  • 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 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)

Evolution for HDGF Gene

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

Paralogs for HDGF Gene

Paralogs for HDGF Gene

(4) SIMAP similar genes for HDGF Gene using alignment to 4 proteins:

Pseudogenes.org Pseudogenes for HDGF Gene

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

Variants for HDGF Gene

Sequence variations from dbSNP and Humsavar for HDGF Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10713813 -- 156,749,804(+) TCCCC(-/A)AGGGC intron-variant, upstream-variant-2KB
rs111386902 -- 156,748,533(+) CCAGG(A/C)AAGTT intron-variant, upstream-variant-2KB
rs111789231 -- 156,749,546(+) CTTTA(C/T)CTAAA intron-variant, upstream-variant-2KB
rs112290026 -- 156,745,007(+) GCTCA(A/C/G)CTGAT splice-donor-variant
rs112522368 -- 156,749,804(+) TCCCC(A/C)AGGGC intron-variant, upstream-variant-2KB

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

Variant ID Type Subtype PubMed ID
nsv819403 CNV loss 19587683
nsv831648 CNV loss 17160897

Variation tolerance for HDGF Gene

Residual Variation Intolerance Score: 43.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.29; 81.34% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HDGF Gene

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

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

Disorders for HDGF Gene

MalaCards: The human disease database

(2) MalaCards diseases for HDGF Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
lung cancer
  • lung cancer, protection against
hepatocellular carcinoma
  • hepatocellular carcinoma, somatic
- elite association - COSMIC cancer census association via MalaCards
Search HDGF in MalaCards View complete list of genes associated with diseases

Relevant External Links for HDGF

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HDGF
genes like me logo Genes that share disorders with HDGF: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HDGF Gene

Publications for HDGF Gene

  1. Hepatoma-derived growth factor binds DNA through the N-terminal PWWP domain. (PMID: 17974029) Yang J. … Everett A.D. (BMC Mol. Biol. 2007) 3 4 22 64
  2. Hepatoma-derived growth factor stimulates cell growth after translocation to the nucleus by nuclear localization signals. (PMID: 11751870) Kishima Y. … Nakamura H. (J. Biol. Chem. 2002) 3 4 22 64
  3. Mapping of the gene encoding the human hepatoma-derived growth factor (HDGF) with homology to the high-mobility group (HMG)-1 protein to Xq25. (PMID: 8833162) Wanschura S. … Bullerdiek J. (Genomics 1996) 2 3 22 64
  4. Molecular cloning of complementary DNA for a novel human hepatoma- derived growth factor. Its homology with high mobility group-1 protein. (PMID: 7929202) Nakamura H. … Kishimoto T. (J. Biol. Chem. 1994) 3 4 22 64
  5. Mechanistic study on growth suppression and apoptosis induction by targeting hepatoma-derived growth factor in human hepatocellular carcinoma HepG2 cells. (PMID: 19710540) Tsang T.Y. … Kwok T.T. (Cell. Physiol. Biochem. 2009) 3 22 64

Products for HDGF Gene

Sources for HDGF Gene

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