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Aliases for HDGFL3 Gene

Aliases for HDGFL3 Gene

  • HDGF Like 3 2 3 5
  • Hepatoma-Derived Growth Factor 2 3 4
  • HDGFRP3 3 4
  • HDGF-2 3 4
  • HDGF2 3 4
  • HRP-3 3 4
  • Hepatoma-Derived Growth Factor, Related Protein 3 3
  • Hepatoma-Derived Growth Factor-Related Protein 3 3
  • CGI-142 3

External Ids for HDGFL3 Gene

Previous GeneCards Identifiers for HDGFL3 Gene

  • GC15M083114
  • GC15M083115
  • GC15M083116

Summaries for HDGFL3 Gene

GeneCards Summary for HDGFL3 Gene

HDGFL3 (HDGF Like 3) is a Protein Coding gene. An important paralog of this gene is HDGFL2.

UniProtKB/Swiss-Prot for HDGFL3 Gene

  • Enhances DNA synthesis and may play a role in cell proliferation.

Gene Wiki entry for HDGFL3 Gene

Additional gene information for HDGFL3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HDGFL3 Gene

Genomics for HDGFL3 Gene

GeneHancer (GH) Regulatory Elements for HDGFL3 Gene

Promoters and enhancers for HDGFL3 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
GH15J083204 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 650.7 +1.2 1220 4.3 HDGF SIN3A GLI4 ZNF2 ZBTB7B YY1 GTF3C2 GLIS2 ZNF213 KLF7 HDGFL3 WHAMM C15orf40 RAMMET RPL9P9 GOLGA6L9 EFL1 CSPG4P11 BTBD1 FABP5P8
GH15J082260 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 14.2 +945.7 945664 3.1 HDGF PKNOX1 CLOCK FOXA2 MLX ARID4B NEUROD1 SIN3A DMAP1 YY1 SAXO2 EFL1 CSPG4P10 HDGFL3 CPEB1 AP3B2 GC15M082251
GH15J083277 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 8.2 -75.8 -75751 12.4 PKNOX1 NFIB NEUROD1 SIN3A BMI1 ZNF335 FOS RCOR1 EGR2 CEBPB BNC1 LOC105370932 BTBD1 HDGFL3 GOLGA6L9 AP3B2 RAMMET HOMER2 UBE2Q2P2 ENSG00000259986
GH15J082708 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 9.8 +498.7 498687 2 ZNF133 ARID4B SIN3A ZNF48 ZNF766 GLIS2 ZNF213 ELK1 ZNF143 ZFP91 AP3B2 C15orf40 SAXO2 SNHG21 LINC01583 WHAMM RPL9P9 CPEB1 HDGFL3 EFL1
GH15J082749 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 5.9 +457.2 457182 3.3 HDGF PKNOX1 SMAD1 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 SNHG21 WHAMM AP3B2 FSD2 EFL1 HOMER2 C15orf40 HDGFL3 GOLGA6L10 ENSG00000252690
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HDGFL3 on UCSC Golden Path with GeneCards custom track

Genomic Locations for HDGFL3 Gene

Genomic Locations for HDGFL3 Gene
chr15:83,112,738-83,208,018
(GRCh38/hg38)
Size:
95,281 bases
Orientation:
Minus strand
chr15:83,784,320-83,876,770
(GRCh37/hg19)
Size:
92,451 bases
Orientation:
Minus strand

Genomic View for HDGFL3 Gene

Genes around HDGFL3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HDGFL3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HDGFL3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HDGFL3 Gene

Proteins for HDGFL3 Gene

  • Protein details for HDGFL3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y3E1-HDGR3_HUMAN
    Recommended name:
    Hepatoma-derived growth factor-related protein 3
    Protein Accession:
    Q9Y3E1

    Protein attributes for HDGFL3 Gene

    Size:
    203 amino acids
    Molecular mass:
    22620 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HDGFL3 Gene

Post-translational modifications for HDGFL3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HDGFL3 Gene

No data available for DME Specific Peptides for HDGFL3 Gene

Domains & Families for HDGFL3 Gene

Protein Domains for HDGFL3 Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for HDGFL3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y3E1

UniProtKB/Swiss-Prot:

HDGR3_HUMAN :
  • Belongs to the HDGF family.
Family:
  • Belongs to the HDGF family.
genes like me logo Genes that share domains with HDGFL3: view

No data available for Gene Families for HDGFL3 Gene

Function for HDGFL3 Gene

Molecular function for HDGFL3 Gene

UniProtKB/Swiss-Prot Function:
Enhances DNA synthesis and may play a role in cell proliferation.

Gene Ontology (GO) - Molecular Function for HDGFL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008017 microtubule binding ISS --
GO:0008083 growth factor activity IEA --
GO:0015631 tubulin binding ISS --
genes like me logo Genes that share ontologies with HDGFL3: view
genes like me logo Genes that share phenotypes with HDGFL3: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HDGFL3 Gene

Localization for HDGFL3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HDGFL3 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 HDGFL3 gene
Compartment Confidence
nucleus 5
cytosol 5
extracellular 4
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for HDGFL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IDA 27068509
GO:0005634 nucleus IEA,IDA 10581169
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IEA,ISS --
genes like me logo Genes that share ontologies with HDGFL3: view

Pathways & Interactions for HDGFL3 Gene

SuperPathways for HDGFL3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HDGFL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007026 negative regulation of microtubule depolymerization ISS --
GO:0008283 cell proliferation NAS 10581169
GO:0010469 regulation of signaling receptor activity IEA --
GO:0031175 neuron projection development ISS --
GO:0046785 microtubule polymerization ISS --
genes like me logo Genes that share ontologies with HDGFL3: view

No data available for Pathways by source and SIGNOR curated interactions for HDGFL3 Gene

Drugs & Compounds for HDGFL3 Gene

No Compound Related Data Available

Transcripts for HDGFL3 Gene

mRNA/cDNA for HDGFL3 Gene

Alternative Splicing Database (ASD) splice patterns (SP) for HDGFL3 Gene

No ASD Table

Relevant External Links for HDGFL3 Gene

GeneLoc Exon Structure for
HDGFL3
ECgene alternative splicing isoforms for
HDGFL3

Expression for HDGFL3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA Expression by UniProt/SwissProt for HDGFL3 Gene:

Q9Y3E1-HDGR3_HUMAN
Tissue specificity: Detected in testis, heart, spinal cord and brain.

Evidence on tissue expression from TISSUES for HDGFL3 Gene

  • Blood(4.2)
  • Lung(4.1)
  • Nervous system(3.6)
genes like me logo Genes that share expression patterns with HDGFL3: view

No data available for mRNA expression in normal human tissues , 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 HDGFL3 Gene

Orthologs for HDGFL3 Gene

This gene was present in the common ancestor of animals.

Orthologs for HDGFL3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 34
  • 100 (a)
OneToOne
HDGFRP3 33
  • 100 (n)
dog
(Canis familiaris)
Mammalia -- 34
  • 99 (a)
OneToOne
HDGFRP3 33
  • 94.54 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Hdgfrp3 34 33
  • 94.39 (n)
OneToOne
Hdgfl3 16
rat
(Rattus norvegicus)
Mammalia Hdgfrp3 33
  • 94.22 (n)
cow
(Bos Taurus)
Mammalia HDGFRP3 34 33
  • 93.92 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 84 (a)
OneToOne
chicken
(Gallus gallus)
Aves HDGFRP3 33
  • 87.5 (n)
-- 34
  • 82 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 97 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia hdgfrp3 33
  • 81.02 (n)
zebrafish
(Danio rerio)
Actinopterygii CABZ01088864.1 34
  • 100 (a)
OneToOne
hdgfrp3 33
  • 68.03 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG7946 34
  • 11 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea C06A5.3 34
  • 6 (a)
OneToMany
Species where no ortholog for HDGFL3 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 HDGFL3 Gene

ENSEMBL:
Gene Tree for HDGFL3 (if available)
TreeFam:
Gene Tree for HDGFL3 (if available)

Paralogs for HDGFL3 Gene

Paralogs for HDGFL3 Gene

Pseudogenes.org Pseudogenes for HDGFL3 Gene

genes like me logo Genes that share paralogs with HDGFL3: view

Variants for HDGFL3 Gene

Sequence variations from dbSNP and Humsavar for HDGFL3 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs1000053900 -- 83,178,093(-) G/A intron_variant
rs1000095506 -- 83,132,257(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000125578 -- 83,135,458(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000150718 -- 83,195,942(-) T/C intron_variant
rs1000166847 -- 83,146,154(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for HDGFL3 Gene

Variant ID Type Subtype PubMed ID
esv2478815 CNV deletion 19546169
esv3420115 CNV insertion 20981092
esv3569787 CNV gain 25503493
nsv1113726 CNV deletion 24896259
nsv1120052 OTHER inversion 24896259
nsv479714 CNV novel sequence insertion 20440878
nsv94888 CNV insertion 16902084
nsv984103 CNV duplication 23825009

Variation tolerance for HDGFL3 Gene

Residual Variation Intolerance Score: 64.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.17; 3.85% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HDGFL3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HDGFL3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HDGFL3 Gene

Disorders for HDGFL3 Gene

Additional Disease Information for HDGFL3

No disorders were found for HDGFL3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HDGFL3 Gene

Publications for HDGFL3 Gene

  1. Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics. (PMID: 10810093) Lai CH … Lin W (Genome research 2000) 2 3 4 58
  2. A new member of a hepatoma-derived growth factor gene family can translocate to the nucleus. (PMID: 10581169) Ikegame K … Nakamura H (Biochemical and biophysical research communications 1999) 2 3 4 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 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. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for HDGFL3 Gene

Sources for HDGFL3 Gene

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