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Aliases for HERC3 Gene

Aliases for HERC3 Gene

  • HECT And RLD Domain Containing E3 Ubiquitin Protein Ligase 3 2 3 5
  • HECT Domain And RCC1-Like Domain-Containing Protein 3 4
  • HECT-Type E3 Ubiquitin Transferase HERC3 4
  • Hect Domain And RLD 3 2
  • EC 4
  • KIAA0032 4
  • EC 6.3.2 61

External Ids for HERC3 Gene

Previous GeneCards Identifiers for HERC3 Gene

  • GC04P089671
  • GC04P089815
  • GC04P089906
  • GC04P089972
  • GC04P089870
  • GC04U900479
  • GC04P089513
  • GC04P085266
  • GC04P089444

Summaries for HERC3 Gene

Entrez Gene Summary for HERC3 Gene

  • This gene encodes a member the HERC ubiquitin ligase family. The encoded protein is located in the cytosol and binds ubiquitin via a HECT domain. Mutations in this gene have been associated with colorectal and gastric carcinomas. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Oct 2012]

GeneCards Summary for HERC3 Gene

HERC3 (HECT And RLD Domain Containing E3 Ubiquitin Protein Ligase 3) is a Protein Coding gene. Among its related pathways are Innate Immune System and Class I MHC mediated antigen processing and presentation. GO annotations related to this gene include ligase activity and ubiquitin-protein transferase activity. An important paralog of this gene is HERC4.

UniProtKB/Swiss-Prot for HERC3 Gene

  • E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HERC3 Gene

Genomics for HERC3 Gene

Regulatory Elements for HERC3 Gene

Enhancers for HERC3 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
GH04G088608 1.8 FANTOM5 Ensembl ENCODE dbSUPER 18.6 +90.6 90560 6.0 PKNOX1 TBL1XR1 BMI1 FEZF1 ZBTB40 GATA2 CBX5 ZSCAN5C RELB ETV6 HERC3 LOC100129137 PIGY PYURF NAP1L5 FAM13A-AS1 PPM1K GC04M088591 RNU6-33P GC04M088685
GH04G088598 1.3 Ensembl ENCODE dbSUPER 11.5 +79.2 79220 3.1 FOXA2 JUN RFX5 FOSL1 ZNF316 GATA3 GATA2 POLR2A SCRT2 FOS LOC100129137 HERC3 PYURF PIGY NAP1L5 FAM13A-AS1 GC04M088591 GC04M088685 RNU6-33P
GH04G088591 1.3 ENCODE dbSUPER 11.2 +71.7 71708 3.1 PKNOX1 ATF1 AGO1 ZFP64 ARID4B SIN3A ZNF2 ZNF48 YY1 ELK1 LOC100129137 PIGY PYURF HERC3 FAM13A-AS1 GC04M088591 GC04M088685 RNU6-33P
GH04G088658 1.1 Ensembl ENCODE 12.4 +139.7 139719 3.8 ELF3 SOX13 CTCF FOXA2 ARID4B CEBPG RAD21 ZNF316 GATA3 HNF4G LOC100129137 HERC3 PIGY PYURF NAP1L5 FAM13A-AS1 GC04M088685 RNU6-33P GC04M088591
GH04G088016 1.2 Ensembl ENCODE dbSUPER 9.7 -503.2 -503241 3.4 CTCF JUN CEBPB ZNF175 SIN3A CEBPG EBF1 ATF2 FOSL1 JUND SPP1 RNU6ATAC31P HERC3 LOC100129137 PIGY PYURF PKD2 GC04P088089
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HERC3 on UCSC Golden Path with GeneCards custom track

Genomic Location for HERC3 Gene

88,521,048 bp from pter
88,709,297 bp from pter
188,250 bases
Plus strand

Genomic View for HERC3 Gene

Genes around HERC3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HERC3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HERC3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HERC3 Gene

Proteins for HERC3 Gene

  • Protein details for HERC3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Probable E3 ubiquitin-protein ligase HERC3
    Protein Accession:
    Secondary Accessions:
    • A8K1S5
    • Q8IXX3

    Protein attributes for HERC3 Gene

    1050 amino acids
    Molecular mass:
    117188 Da
    Quaternary structure:
    No Data Available
    • Sequence=BAA04945.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for HERC3 Gene


neXtProt entry for HERC3 Gene

Selected DME Specific Peptides for HERC3 Gene


Post-translational modifications for HERC3 Gene

  • Ubiquitinated; which promotes degradation by the proteasome.
  • Ubiquitination at posLast=6363 and isoforms=920
  • Modification sites at PhosphoSitePlus

Domains & Families for HERC3 Gene

Suggested Antigen Peptide Sequences for HERC3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with HERC3: view

No data available for Gene Families and UniProtKB/Swiss-Prot for HERC3 Gene

Function for HERC3 Gene

Molecular function for HERC3 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
UniProtKB/Swiss-Prot Function:
E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.

Enzyme Numbers (IUBMB) for HERC3 Gene

Gene Ontology (GO) - Molecular Function for HERC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity IEA --
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with HERC3: view
genes like me logo Genes that share phenotypes with HERC3: view

Animal Models for HERC3 Gene

MGI Knock Outs for HERC3:

Animal Model Products

CRISPR Products

miRNA for HERC3 Gene

miRTarBase miRNAs that target HERC3

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HERC3 Gene

Localization for HERC3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HERC3 Gene

Cytoplasm. Cytoplasmic vesicle. Note=Also found in vesicular-like structures.

Subcellular locations from

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 HERC3 gene
Compartment Confidence
cytosol 5
nucleus 3

Gene Ontology (GO) - Cellular Components for HERC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IDA --
GO:0031410 cytoplasmic vesicle IEA --
genes like me logo Genes that share ontologies with HERC3: view

Pathways & Interactions for HERC3 Gene

genes like me logo Genes that share pathways with HERC3: view

UniProtKB/Swiss-Prot Q15034-HERC3_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for HERC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016567 protein ubiquitination IEA --
genes like me logo Genes that share ontologies with HERC3: view

No data available for SIGNOR curated interactions for HERC3 Gene

Drugs & Compounds for HERC3 Gene

No Compound Related Data Available

Transcripts for HERC3 Gene

mRNA/cDNA for HERC3 Gene

(12) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(14) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for HERC3 Gene

HECT and RLD domain containing E3 ubiquitin protein ligase 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for HERC3 Gene

No ASD Table

Relevant External Links for HERC3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HERC3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HERC3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for HERC3 Gene

This gene is overexpressed in Urine (13.4), Platelet (13.3), Colon muscle (12.1), Plasma (10.6), and Stomach (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HERC3 Gene

NURSA nuclear receptor signaling pathways regulating expression of HERC3 Gene:


SOURCE GeneReport for Unigene cluster for HERC3 Gene:


Evidence on tissue expression from TISSUES for HERC3 Gene

  • Nervous system(4.7)
  • Bone marrow(4.2)
  • Skin(4.2)
genes like me logo Genes that share expression patterns with HERC3: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HERC3 Gene

Orthologs for HERC3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for HERC3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia HERC3 34
  • 98.16 (n)
(Canis familiaris)
Mammalia HERC3 34 35
  • 93.59 (n)
(Monodelphis domestica)
Mammalia HERC3 35
  • 92 (a)
(Bos Taurus)
Mammalia HERC3 34 35
  • 91.97 (n)
(Mus musculus)
Mammalia Herc3 34 16 35
  • 89.08 (n)
(Rattus norvegicus)
Mammalia Herc3 34
  • 89.08 (n)
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 18 (a)
(Gallus gallus)
Aves HERC3 34 35
  • 79.62 (n)
(Anolis carolinensis)
Reptilia HERC3 35
  • 81 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia herc3 34
  • 72.06 (n)
(Danio rerio)
Actinopterygii herc3 34 35
  • 64.91 (n)
Dr.16537 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.7420 34
fruit fly
(Drosophila melanogaster)
Insecta CG9153 36 35
  • 44 (a)
(Caenorhabditis elegans)
Secernentea herc-1 34 35
  • 47.12 (n)
Y48G8AL.1 36
  • 33 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HUL4 35
  • 22 (a)
Species where no ortholog for HERC3 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)
  • 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)
  • 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 HERC3 Gene

Gene Tree for HERC3 (if available)
Gene Tree for HERC3 (if available)

Paralogs for HERC3 Gene

Variants for HERC3 Gene

Sequence variations from dbSNP and Humsavar for HERC3 Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type
rs1000009906 -- 88,623,147(+) AGATT(C/G)ACCTG intron-variant
rs1000078195 -- 88,622,034(+) GTACA(A/G)TTCAA intron-variant
rs10000885 -- 88,665,040(+) GAGAT(A/C)TCAAG intron-variant
rs1000110501 -- 88,674,272(+) CAGGA(A/G)TGGGA intron-variant
rs1000119420 -- 88,617,154(+) TGTGC(A/C)ATATA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HERC3 Gene

Variant ID Type Subtype PubMed ID
dgv2850n106 CNV deletion 24896259
esv1953449 CNV deletion 18987734
esv2278581 CNV deletion 18987734
esv2640318 CNV deletion 19546169
esv2657218 CNV deletion 23128226
esv2727952 CNV deletion 23290073
esv2727953 CNV deletion 23290073
esv3564216 CNV deletion 23714750
esv5387 CNV loss 18987735
nsv1073354 CNV deletion 25765185
nsv291508 CNV deletion 16902084
nsv461575 CNV gain 19166990
nsv461576 CNV gain 19166990
nsv594805 CNV gain 21841781
nsv594806 CNV gain 21841781

Variation tolerance for HERC3 Gene

Residual Variation Intolerance Score: 6.67% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.28; 85.15% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HERC3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HERC3 Gene

Disorders for HERC3 Gene

Relevant External Links for HERC3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for HERC3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HERC3 Gene

Publications for HERC3 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  2. HERC3 binding to and regulation by ubiquitin. (PMID: 11163799) Cruz C. … Rosa J.L. (FEBS Lett. 2001) 3 4 64
  3. The human HERC3 gene maps to chromosome 4q21 by fluorescence in situ hybridization. (PMID: 10702688) Cruz C. … Rosa J.L. (Cytogenet. Cell Genet. 1999) 2 3 64
  4. Prediction of the coding sequences of unidentified human genes. I. The coding sequences of 40 new genes (KIAA0001-KIAA0040) deduced by analysis of randomly sampled cDNA clones from human immature myeloid cell line KG-1. (PMID: 7584026) Nomura N. … Tabata S. (DNA Res. 1994) 3 4 64
  5. SR protein kinases promote splicing of nonconsensus introns. (PMID: 26167880) Lipp J.J. … Guthrie C. (Nat. Struct. Mol. Biol. 2015) 3 64

Products for HERC3 Gene

Sources for HERC3 Gene

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