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Aliases for HDGFL2 Gene

Aliases for HDGFL2 Gene

  • HDGF Like 2 2 3
  • Hepatoma-Derived Growth Factor-Related Protein 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 2 4
  • CTB-50L17.10 5
  • 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.

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

Regulatory Elements for HDGFL2 Gene

Enhancers for HDGFL2 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
GH19G004574 2 FANTOM5 Ensembl ENCODE dbSUPER 11.9 +103.3 103288 2.5 HDGF PKNOX1 ARNT ARID4B FEZF1 ZNF2 ZBTB7B ZNF143 ZNF548 FOS CACTIN APBA3 CACTIN-AS1 ENSG00000267030 TICAM1 ENSG00000269807 ENSG00000267769 DPP9-AS1 SH3GL1 HDGFL2
GH19G004367 2 FANTOM5 Ensembl ENCODE dbSUPER 11.6 -97.4 -97376 14.8 CREB3L1 MLX AGO1 DMAP1 ZNF143 ZNF263 NFYC TBX21 MEF2D SSRP1 ENSG00000267769 SEMA6B CHAF1A SH3GL1 UBXN6 CACTIN ENSG00000267030 TMIGD2 FSD1 ENSG00000267980
GH19G003722 1.6 Ensembl ENCODE dbSUPER 13 -751.1 -751103 4.8 HDGF PKNOX1 CREB3L1 ARNT AGO1 ARID4B SIN3A ZNF2 YY1 ZNF766 CACTIN MRPL54 ZNF554 HDGFL2 APBA3 ZNF555 ZNF77 TMIGD2 FSD1 GC19P003720
GH19G004866 1.7 FANTOM5 ENCODE dbSUPER 11.8 +396.5 396458 5.7 CREB3L1 DMAP1 YY1 ZNF143 ZNF548 ZNF263 SP3 NFYC MEF2D GLIS1 SNRPEP4 SAFB ENSG00000267030 ENSG00000269807 DPP9-AS1 ENSG00000267769 PLIN3 SAFB2 SH3GL1 HDGFL2
GH19G004840 1.5 Ensembl ENCODE dbSUPER 13.2 +371.3 371263 6.9 HDGF PKNOX1 MLX ZFP64 FEZF1 YY1 ZNF143 FOS DEK ZNF263 SNRPEP4 ENSG00000267030 SAFB HDGFL2 ENSG00000267769 SH3GL1 ENSG00000269807 SAFB2 PLIN3 PIR52015
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HDGFL2 on UCSC Golden Path with GeneCards custom track

Promoters for HDGFL2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000287109 -96 2201 HDGF PKNOX1 ARNT SIN3A ARID4B DMAP1 ZBTB7B YY1 ZNF143 FOS
ENSR00000287110 1504 201

Genomic Location for HDGFL2 Gene

Chromosome:
19
Start:
4,472,196 bp from pter
End:
4,502,220 bp from pter
Size:
30,025 bases
Orientation:
Plus strand

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

InterPro:
Blocks:
ProtoNet:

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.

Gene Ontology (GO) - Molecular Function for HDGFL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003682 chromatin binding IEA --
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

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

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

Transcripts for HDGFL2 Gene

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(2.9)

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 34
  • 98.73 (n)
-- 35
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 35
  • 85 (a)
OneToOne
HDGFRP2 34
  • 82.13 (n)
cow
(Bos Taurus)
Mammalia -- 35
  • 84 (a)
OneToOne
HDGFRP2 34
  • 81.8 (n)
mouse
(Mus musculus)
Mammalia Hdgfrp2 34 35
  • 79.75 (n)
Hdgfl2 16
rat
(Rattus norvegicus)
Mammalia Hdgfrp2 34
  • 79.67 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 61 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 35
  • 70 (a)
OneToOne
LOC772302 34
  • 69.62 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 57 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC75972 34
zebrafish
(Danio rerio)
Actinopterygii hdgfrp2 35
  • 47 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG7946 35
  • 20 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea C06A5.3 35
  • 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 Sequence Context AA Info Type
rs1000015291 -- 4,484,526(+) CAGAG(G/T)CTTCG intron-variant
rs1000044027 -- 4,471,107(+) CCCCG(C/T)TCCTG upstream-variant-2KB
rs1000184050 -- 4,478,798(+) TTCTG(C/T)CTCAG intron-variant
rs1000243937 -- 4,472,246(+) GGCGT(C/T)CCGCT upstream-variant-2KB, utr-variant-5-prime
rs1000265299 -- 4,495,145(+) CACTC(C/T)GGGAG 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)

Relevant External Links 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

Relevant External Links for HDGFL2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 64
  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. (J. Biol. Chem. 2004) 2 3 22 64
  3. HDGF-related protein-2 (HRP-2) acts as an oncogene to promote cell growth in hepatocellular carcinoma. (PMID: 25689719) Gao K. … Zhang P. (Biochem. Biophys. Res. Commun. 2015) 3 4 64
  4. Structural and histone binding ability characterizations of human PWWP domains. (PMID: 21720545) Wu H. … Min J. (PLoS ONE 2011) 3 4 64
  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 H.F. … Gray A.M. (Genome Res. 2003) 3 4 64

Products for HDGFL2 Gene

Sources for HDGFL2 Gene

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