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Aliases for HDGFL2 Gene

Aliases for HDGFL2 Gene

  • HDGF Like 2 2 3 5
  • HDGFRP2 3 4
  • HDGF-2 3 4
  • HDGF2 3 4
  • HRP-2 3 4
  • Hepatoma-Derived Growth Factor Related Protein 2 2
  • Hepatoma-Derived Growth Factor-Related Protein 2 3
  • Hepatoma-Derived Growth Factor 2 4
  • HRP2 3

External Ids for HDGFL2 Gene

Summaries for HDGFL2 Gene

Entrez Gene Summary for HDGFL2 Gene

  • This gene encodes a member of the hepatoma-derived growth factor (HDGF) family. The protein includes an N-terminal PWWP domain that binds to methyl-lysine-containing histones, with specific binding of this protein to tri-methylated lysines 36 and 79 of histone H3, and di- and tri-methylated lysine 20 of histone H4. The protein functions in LEDGF/p75-independent HIV-1 replication by determining HIV-1 integration site selection. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Apr 2014]

GeneCards Summary for HDGFL2 Gene

HDGFL2 (HDGF Like 2) is a Protein Coding gene. An important paralog of this gene is PSIP1.

UniProtKB/Swiss-Prot for HDGFL2 Gene

  • Involved in cellular growth control, through the regulation of cyclin D1 expression.

Additional gene information for HDGFL2 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HDGFL2 Gene

Genomics for HDGFL2 Gene

GeneHancer (GH) Regulatory Elements for HDGFL2 Gene

Promoters and enhancers for HDGFL2 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
GH19I004470 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 558.6 +0.6 630 5 HDGF PKNOX1 ARNT ARID4B SIN3A DMAP1 ZBTB7B YY1 POLR2B E2F8 HDGFL2 ENSG00000267011 CACTIN-AS1 PIAS4 ENSG00000267769 GC19P004486
GH19I003605 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 22.2 -864.6 -864593 4.6 HDGF PKNOX1 ARNT SIN3A YBX1 ZNF2 POLR2B ZNF766 SP3 MCM5 CACTIN-AS1 TBXA2R ZNF77 CACTIN CCDC94 ENSG00000267030 ZNF555 ENSG00000267769 APBA3 GNA11
GH19I004721 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 20.8 +251.9 251907 4.5 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 ZNF548 SP3 NFYC ZFP41 DPP9 GC19P004749 GC19M004737 LOC105372250 TRG-TCC1-1 TRV-CAC3-1 PTPRS SAFB2 SAFB SNRPEP4
GH19I004246 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 22.2 -224.9 -224864 2.2 CLOCK DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 ZNF263 MCM3 CCDC94 ENSG00000280247 CACTIN CACTIN-AS1 ENSG00000267769 ENSG00000267030 HDGFL2 PIAS4 APBA3 DPP9-AS1
GH19I003719 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 13 -751.1 -751103 4.8 HDGF PKNOX1 ARNT NEUROD1 SIN3A ZNF2 YY1 ZNF766 E2F8 ZNF207 GC19P003720 TJP3 ZNF77 CACTIN ZNF555 TLE2 MRPL54 GNA11 ZNF554 HDGFL2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around HDGFL2 on UCSC Golden Path with GeneCards custom track

Genomic Locations for HDGFL2 Gene

Genomic Locations for HDGFL2 Gene
chr19:4,472,196-4,502,220
(GRCh38/hg38)
Size:
30,025 bases
Orientation:
Plus strand
chr19:4,472,255-4,502,223
(GRCh37/hg19)

Genomic View for HDGFL2 Gene

Genes around HDGFL2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HDGFL2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HDGFL2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HDGFL2 Gene

Proteins for HDGFL2 Gene

  • Protein details for HDGFL2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7Z4V5-HDGR2_HUMAN
    Recommended name:
    Hepatoma-derived growth factor-related protein 2
    Protein Accession:
    Q7Z4V5
    Secondary Accessions:
    • I3L080
    • K7EQZ6
    • Q96GI5
    • Q9BW08

    Protein attributes for HDGFL2 Gene

    Size:
    671 amino acids
    Molecular mass:
    74317 Da
    Quaternary structure:
    • Interacts with HDGF (By similarity). Interacts with trimethylated Lys-36 of histone H3 (H3K36me3). Interacts with trimethylated Lys-79 of histone H3 (H3K79me3), but has higher affinity for H3K36me3. Interacts with IWS1 (PubMed:25689719).

    Three dimensional structures from OCA and Proteopedia for HDGFL2 Gene

    Alternative splice isoforms for HDGFL2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HDGFL2 Gene

Post-translational modifications for HDGFL2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for HDGFL2 Gene

Domains & Families for HDGFL2 Gene

Protein Domains for HDGFL2 Gene

Suggested Antigen Peptide Sequences for HDGFL2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q7Z4V5

UniProtKB/Swiss-Prot:

HDGR2_HUMAN :
  • Belongs to the HDGF family.
Family:
  • Belongs to the HDGF family.
genes like me logo Genes that share domains with HDGFL2: view

No data available for Gene Families for HDGFL2 Gene

Function for HDGFL2 Gene

Molecular function for HDGFL2 Gene

UniProtKB/Swiss-Prot Function:
Involved in cellular growth control, through the regulation of cyclin D1 expression.

Phenotypes From GWAS Catalog for HDGFL2 Gene

Gene Ontology (GO) - Molecular Function for HDGFL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21044950
genes like me logo Genes that share ontologies with HDGFL2: view

Phenotypes for HDGFL2 Gene

genes like me logo Genes that share phenotypes with HDGFL2: view

Animal Models for HDGFL2 Gene

MGI Knock Outs for HDGFL2:

Animal Model Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HDGFL2 Gene

Localization for HDGFL2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HDGFL2 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 HDGFL2 gene
Compartment Confidence
nucleus 5
mitochondrion 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for HDGFL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with HDGFL2: view

Pathways & Interactions for HDGFL2 Gene

SuperPathways for HDGFL2 Gene

No Data Available

Interacting Proteins for HDGFL2 Gene

Gene Ontology (GO) - Biological Process for HDGFL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030307 positive regulation of cell growth IMP 25689719
genes like me logo Genes that share ontologies with HDGFL2: view

No data available for Pathways by source and SIGNOR curated interactions for HDGFL2 Gene

Drugs & Compounds for HDGFL2 Gene

No Compound Related Data Available

Transcripts for HDGFL2 Gene

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for HDGFL2 Gene

No ASD Table

Relevant External Links for HDGFL2 Gene

GeneLoc Exon Structure for
HDGFL2
ECgene alternative splicing isoforms for
HDGFL2

Expression for HDGFL2 Gene

mRNA Expression by UniProt/SwissProt for HDGFL2 Gene:

Q7Z4V5-HDGR2_HUMAN
Tissue specificity: Widely expressed. High expression is found in heart, skeletal muscle, ovary and testis. Overexpression is frequently observed in hepatocellular carcinoma samples.

Evidence on tissue expression from TISSUES for HDGFL2 Gene

  • Kidney(4.4)
  • Muscle(4.4)
  • Liver(4.3)
  • Nervous system(2.7)

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for HDGFL2 Gene

Orthologs for HDGFL2 Gene

This gene was present in the common ancestor of animals.

Orthologs for HDGFL2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LOC738335 33
  • 98.73 (n)
-- 34
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 34
  • 85 (a)
OneToOne
HDGFRP2 33
  • 82.13 (n)
cow
(Bos Taurus)
Mammalia -- 34
  • 84 (a)
OneToOne
HDGFRP2 33
  • 81.8 (n)
mouse
(Mus musculus)
Mammalia Hdgfrp2 33 34
  • 79.75 (n)
Hdgfl2 16
rat
(Rattus norvegicus)
Mammalia Hdgfrp2 33
  • 79.67 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 61 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 34
  • 70 (a)
OneToOne
LOC772302 33
  • 69.62 (n)
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 57 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC75972 33
zebrafish
(Danio rerio)
Actinopterygii hdgfrp2 34
  • 47 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG7946 34
  • 20 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea C06A5.3 34
  • 16 (a)
OneToMany
Species where no ortholog for HDGFL2 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 HDGFL2 Gene

ENSEMBL:
Gene Tree for HDGFL2 (if available)
TreeFam:
Gene Tree for HDGFL2 (if available)

Paralogs for HDGFL2 Gene

Paralogs for HDGFL2 Gene

genes like me logo Genes that share paralogs with HDGFL2: view

Variants for HDGFL2 Gene

Sequence variations from dbSNP and Humsavar for HDGFL2 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000015291 -- 4,484,526(+) T/G intron_variant
rs1000044027 -- 4,471,107(+) C/T upstream_transcript_variant
rs1000184050 -- 4,478,798(+) C/T intron_variant
rs1000243937 -- 4,472,246(+) C/T 5_prime_UTR_variant, genic_upstream_transcript_variant, upstream_transcript_variant
rs1000265299 -- 4,495,145(+) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for HDGFL2 Gene

Variant ID Type Subtype PubMed ID
dgv1979e59 CNV duplication 20981092
nsv1116293 CNV deletion 24896259
nsv470116 CNV loss 18288195
nsv578444 CNV gain 21841781
nsv833718 CNV loss 17160897
nsv833720 CNV loss 17160897

Variation tolerance for HDGFL2 Gene

Residual Variation Intolerance Score: 30.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.60; 45.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HDGFL2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HDGFL2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HDGFL2 Gene

Disorders for HDGFL2 Gene

Additional Disease Information for HDGFL2

No disorders were found for HDGFL2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HDGFL2 Gene

Publications for HDGFL2 Gene

  1. Biochemical and genetic analyses of integrase-interacting proteins lens epithelium-derived growth factor (LEDGF)/p75 and hepatoma-derived growth factor related protein 2 (HRP2) in preintegration complex function and HIV-1 replication. (PMID: 16337983) Vandegraaff N … Engelman A (Virology 2006) 2 3 22 58
  2. Identification of an evolutionarily conserved domain in human lens epithelium-derived growth factor/transcriptional co-activator p75 (LEDGF/p75) that binds HIV-1 integrase. (PMID: 15371438) Cherepanov P … Engelman A (The Journal of biological chemistry 2004) 2 3 22 58
  3. HDGF-related protein-2 (HRP-2) acts as an oncogene to promote cell growth in hepatocellular carcinoma. (PMID: 25689719) Gao K … Zhang P (Biochemical and biophysical research communications 2015) 3 4 58
  4. Structural and histone binding ability characterizations of human PWWP domains. (PMID: 21720545) Wu H … Min J (PloS one 2011) 3 4 58
  5. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 58

Products for HDGFL2 Gene

Sources for HDGFL2 Gene

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