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Aliases for HDGF Gene

Aliases for HDGF Gene

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

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. 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, Jul 2008]

GeneCards Summary for HDGF Gene

HDGF (Hepatoma-Derived Growth Factor) is a Protein Coding gene. Diseases associated with HDGF include intrahepatic cholangiocarcinoma and hepatocellular carcinoma. Among its related pathways are NF-KappaB Family Pathway and Apoptotic Pathways in Synovial Fibroblasts. 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

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

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

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
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

Proteomics data for HDGF Gene at MOPED

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

Other Protein References for HDGF Gene

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:0005515 protein binding --
genes like me logo Genes that share ontologies with HDGF: view
genes like me logo Genes that share phenotypes with HDGF: view

Animal Model Products

miRNA for HDGF Gene

miRTarBase miRNAs that target HDGF

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HDGF

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , 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

Gene Ontology (GO) - Cellular Components for HDGF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IDA 20551380
GO:0005634 nucleus --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IEA --
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:0007165 signal transduction NAS 7929202
GO:0008283 cell proliferation TAS 7929202
GO:0009987 cellular process --
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 672,226
bromodeoxyuridine Pharma 4

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

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Agar
VEGF
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:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HDGF

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, MOPED, and MaxQB for HDGF Gene



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

Protein tissue co-expression partners for HDGF 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 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
cow
(Bos Taurus)
Mammalia HDGF 35
  • 91.63 (n)
  • 95.82 (a)
HDGF 36
  • 85 (a)
OneToOne
dog
(Canis familiaris)
Mammalia HDGF 35
  • 89.9 (n)
  • 92.79 (a)
HDGF 36
  • 86 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Hdgf 35
  • 86.78 (n)
  • 86.92 (a)
Hdgf 16
Hdgf 36
  • 79 (a)
ManyToMany
chimpanzee
(Pan troglodytes)
Mammalia HDGF 35
  • 98.75 (n)
  • 99.06 (a)
HDGF 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Hdgf 35
  • 87.62 (n)
  • 87.76 (a)
oppossum
(Monodelphis domestica)
Mammalia HDGF 36
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 9 (a)
ManyToMany
chicken
(Gallus gallus)
Aves HDGF 35
  • 77.89 (n)
  • 79.08 (a)
-- 36
  • 63 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 60 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia hdgf 35
  • 65.87 (n)
  • 66.03 (a)
zebrafish
(Danio rerio)
Actinopterygii si:ch211-116m6.3 36
  • 4 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta CG7946 36
  • 12 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea C06A5.3 36
  • 7 (a)
OneToMany
Species with no ortholog for HDGF:
  • 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 MAF
rs4341354 -- 156,753,787(+) GTCGT(A/G)ATCTG upstream-variant-2KB
rs4342840 -- 156,751,730(+) cccgg(G/T)cccca intron-variant, utr-variant-5-prime, upstream-variant-2KB
rs4399146 - 156,743,766(+) CAGAG(A/C/G/T)GGGTG missense, reference, downstream-variant-500B
rs4437869 -- 156,743,720(+) TCCTC(C/T)TCTTC reference, synonymous-codon, downstream-variant-500B
rs4471265 -- 156,753,468(+) AGAGA(A/G)TCTTG upstream-variant-2KB

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

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

Variation tolerance for HDGF Gene

Residual Variation Intolerance Score: 43.89% 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

HapMap Linkage Disequilibrium report
HDGF

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

Disorders for HDGF Gene

MalaCards: The human disease database

(3) MalaCards diseases for HDGF Gene - From: DISEASES, NovoSeek, and GeneCards

Disorder Aliases PubMed IDs
intrahepatic cholangiocarcinoma
  • bile duct carcinoma
hepatocellular carcinoma
  • hepatocellular carcinoma, somatic
lung cancer
  • lung cancer, protection against
- elite association
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. 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 23 67
  2. Development and clinical evaluation of a multi-purpose mAb and a sandwich ELISA test for hepatoma-derived growth factor in lung cancer patients. (PMID: 20193688) Zhang A. … Cao B.B. (J. Immunol. Methods 2010) 23 67
  3. shRNA targeting HDGF suppressed cell growth and invasion of squamous cell lung cancer. (PMID: 20043047) Meng J. … Zhe Z. (Acta Biochim. Biophys. Sin. (Shanghai) 2010) 23 67
  4. Hepatoma-derived growth factor represses SET and MYND domain containing 1 gene expression through interaction with C-terminal binding protein. (PMID: 19162039) Yang J. … Everett A.D. (J. Mol. Biol. 2009) 23 67
  5. Hepatoma-derived growth factor is induced in liver regeneration. (PMID: 19624773) Enomoto H. … Nishiguchi S. (Hepatol. Res. 2009) 23 67

Products for HDGF Gene

Sources for HDGF Gene

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