Aliases for HERC3 Gene
Aliases for HERC3 Gene
External Ids for HERC3 Gene
- HGNC: 4876
- Entrez Gene: 8916
- Ensembl: ENSG00000138641
- OMIM: 605200
- UniProtKB: Q15034
Previous GeneCards Identifiers for HERC3 Gene
- GC04P089671
- GC04P089815
- GC04P089906
- GC04P089972
- GC04P089870
- GC04U900479
- GC04P089513
- GC04P085266
- GC04P089444
- GC04P088521
Summaries 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 Class I MHC mediated antigen processing and presentation and Ubiquitin mediated proteolysis. Gene Ontology (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
GeneHancer (GH) Regulatory Elements for HERC3 Gene
Promoters and enhancers for HERC3 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association
Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)
GeneHancers around HERC3 on UCSC Golden Path with GeneCards custom track
- Top Transcription factor binding sites by QIAGEN in the HERC3 gene promoter:
-
- AREB6
- FOXL1
- p53
- Brachyury
- Pax-4a
- POU3F2
- FOXO4
- POU6F1 (c2)
- MEF-2A
- aMEF-2
Regulatory Element Products
Genomic Locations for HERC3 Gene
Genomic Locations for HERC3 Gene
- chr4:88,592,423-88,709,297
- (GRCh38/hg38)
- Size:
- 116,875 bases
- Orientation:
- Plus strand
- chr4:89,442,199-89,629,693
- (GRCh37/hg19)
- Size:
- 187,495 bases
- Orientation:
- Plus strand
Genomic View for HERC3 Gene
Genes around HERC3 on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 4q22.1 by Entrez Gene
- 4q22.1 by HGNC
- 4q22.1 by Ensembl
HERC3 Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for HERC3 Gene
Proteins for HERC3 Gene
-
Protein details for HERC3 Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- Q15034-HERC3_HUMAN
- Recommended name:
- Probable E3 ubiquitin-protein ligase HERC3
- Protein Accession:
- Q15034
- A8K1S5
- Q8IXX3
Protein attributes for HERC3 Gene
- Size:
- 1050 amino acids
- Molecular mass:
- 117188 Da
- Quaternary structure:
- No Data Available
- SequenceCaution:
-
- Sequence=BAA04945.2; Type=Erroneous initiation; Evidence={ECO:0000305};
Protein Expression for HERC3 Gene
Post-translational modifications for HERC3 Gene
- Ubiquitinated; which promotes degradation by the proteasome.
- Ubiquitination at isoforms=920 and Lys63
- Modification sites at PhosphoSitePlus
Other Protein References for HERC3 Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibody Products
-
Custom Antibody ServicesOriGene Antibodies for HERC3
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-
Abcam antibodies for HERC3
- Invitrogen Antibodies for HERC3
- GeneTex HERC3 Antibody for HERC3
-
Boster Bio Antibodies for HERC3
-
Santa Cruz Biotechnology (SCBT) Antibodies for HERC3
Protein Products
-
OriGene Purified Proteins for HERC3
- Search Origene for MassSpec and Protein Over-expression Lysates for HERC3
- Origene Custom Protein Services for HERC3
- Search GeneTex for Proteins for HERC3
-
Abcam proteins for HERC3
Assay Products
No data available for DME Specific Peptides for HERC3 Gene
Domains & Families for HERC3 Gene
Gene Families for HERC3 Gene
- Human Protein Atlas (HPA):
-
- Enzymes
- Predicted intracellular proteins
Protein Domains for HERC3 Gene
Suggested Antigen Peptide Sequences for HERC3 Gene
- GenScript: Design optimal peptide antigens:
Graphical View of Domain Structure for InterPro Entry
No data available for UniProtKB/Swiss-Prot for HERC3 Gene
Function for HERC3 Gene
Molecular function for HERC3 Gene
- 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.
- 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.
Enzyme Numbers (IUBMB) for HERC3 Gene
Phenotypes From GWAS Catalog for HERC3 Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0016740 | transferase activity | IEA | -- |
| GO:0061630 | ubiquitin protein ligase activity | IBA | -- |
Phenotypes for HERC3 Gene
- MGI mutant phenotypes for HERC3:
- inferred from 1 alleles
- GenomeRNAi human phenotypes for HERC3:
Animal Models for HERC3 Gene
- MGI Knock Outs for HERC3:
-
- Herc3 Herc3<tm1a(EUCOMM)Wtsi>
Animal Model Products
- Taconic Biosciences: Generate A Custom CRISPR Mouse Model For Your Study
- Cyagen custom Knockout/knockin (KOKI) mouse models for HERC3
-
CRISPR Products
-
OriGene CRISPR knockouts for HERC3
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- genomics-online: gRNA clones - Search results for available HERC3 gene related products
- Applied Biological Materials CRISPR for HERC3
-
Vectors and viruses for KO, Activation, Repression, and more
-
Santa Cruz Biotechnology (SCBT) CRISPR for HERC3
- GenScript: Design CRISPR guide RNA sequences for HERC3
miRNA for HERC3 Gene
- miRTarBase miRNAs that target HERC3
miRNA Products
Inhibitory RNA Products
- Origene sirna, shrna, and RNAi products in human, mouse, rat for HERC3
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- genomics-online: shRNA clones - Search results for available HERC3 gene related products
Clone Products
- Sino Biological Human cDNA Clone for HERC3
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-
VectorBuilder Other custom vectors
- Mammalian expression: PiggyBac
- Mammalian Tet-on expression: plasmid
- Mammalian conditional (Cre-Lox): plasmid and PiggyBac
- Mammalian shRNA knockdown: lentiviral, adenoviral, AAV, and PiggyBac
- CRISPR: plasmid gRNA, lentiviral gRNA, and donor plasmid
- Bacterial expression: pET, pBAD, and pCS
- Yeast expression
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for HERC3
- genomics-online: cdna clones - Search results for available HERC3 gene related products
- orf clones - Search results for available HERC3 gene related products
- Applied Biological Materials Clones for HERC3
-
Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more
Cell Line Products
-
Horizon Cell Lines for HERC3
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.
| Compartment | Confidence |
|---|---|
| cytosol | 5 |
| nucleus | 3 |
- Cytosol (2)
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0005737 | cytoplasm | IBA | -- |
| GO:0005829 | cytosol | IDA | -- |
| GO:0031410 | cytoplasmic vesicle | IEA | -- |
Pathways & Interactions for HERC3 Gene
| SuperPathway | Contained pathways | ||
|---|---|---|---|
| 1 | Class I MHC mediated antigen processing and presentation | ||
| 2 | Ubiquitin mediated proteolysis | ||
| 3 | Innate Immune System |
.61
|
|
Pathways by source for HERC3 Gene
4 Reactome pathways for HERC3 Gene
1 KEGG pathway for HERC3 Gene
UniProtKB/Swiss-Prot Q15034-HERC3_HUMAN
- Pathway: Protein modification; protein ubiquitination.
Interacting Proteins for HERC3 Gene
Selected Interacting proteins:
Q15034-HERC3_HUMAN
ENSP00000264345
for HERC3 Gene via
MINT
STRING
IID
GPS-Prot Interaction Network for HERC3
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0016567 | protein ubiquitination | IEA | -- |
No data available for SIGNOR curated interactions for HERC3 Gene
Transcripts for HERC3 Gene
mRNA/cDNA for HERC3 Gene
- (12) REFSEQ mRNAs :
- (6) Additional mRNA sequences :
- (10) Ensembl transcripts including schematic representations, and UCSC links where relevant :
-
- ENST00000402738 4974 bps (uc003hrw.2)
- ENST00000431413 761 bps (uc062ydl.1)
- ENST00000422770 579 bps (uc062ydm.1)
- ENST00000407637 2634 bps (uc003hrv.5)
- ENST00000426683 559 bps (uc062ydn.1)
Unigene Clusters for HERC3 Gene
CRISPR Products
-
OriGene CRISPR knockouts for HERC3
- Search GeneCopoeia for CRISPR/Cas9 clones, lentivirus and AAV products for HERC3
- genomics-online: gRNA clones - Search results for available HERC3 gene related products
- Applied Biological Materials CRISPR for HERC3
-
Vectors and viruses for KO, Activation, Repression, and more
-
Santa Cruz Biotechnology (SCBT) CRISPR for HERC3
- GenScript: Design CRISPR guide RNA sequences for HERC3
miRNA Products
Inhibitory RNA Products
- Origene sirna, shrna, and RNAi products in human, mouse, rat for HERC3
- Browse OriGene Inhibitory RNA Products For HERC3
- Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HERC3
- genomics-online: shRNA clones - Search results for available HERC3 gene related products
Clone Products
- Sino Biological Human cDNA Clone for HERC3
- VectorBuilder custom plasmid, inducible vectors for HERC3
- VectorBuilder custom lentivirus, adenovirus, AAV vector/virus packaging for HERC3
-
VectorBuilder Other custom vectors
- Mammalian expression: PiggyBac
- Mammalian Tet-on expression: plasmid
- Mammalian conditional (Cre-Lox): plasmid and PiggyBac
- Mammalian shRNA knockdown: lentiviral, adenoviral, AAV, and PiggyBac
- CRISPR: plasmid gRNA, lentiviral gRNA, and donor plasmid
- Bacterial expression: pET, pBAD, and pCS
- Yeast expression
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for HERC3
- genomics-online: cdna clones - Search results for available HERC3 gene related products
- orf clones - Search results for available HERC3 gene related products
- Applied Biological Materials Clones for HERC3
-
Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more
Expression for HERC3 Gene
mRNA expression in embryonic tissues and stem cells from LifeMap Discovery
- Brain (Nervous System)
-
Blood (Hematopoietic System)
- Granulocytes Peripheral Blood
-
Eye (Sensory Organs)
- Mature Rod Cells Outer Nuclear Layer
-
Neurons
- Mature Rod Cells Outer Nuclear Layer
-
Limb (Muscoskeletal System)
- Mesenchymal Condensate Cells Zeugopod
-
Bone (Muscoskeletal System)
- Mesenchymal Condensate Cells Zeugopod
-
Cartilage (Muscoskeletal System)
- Mesenchymal Condensate Cells Zeugopod
-
Thyroid (Endocrine System)
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, MaxQB, and MOPED for HERC3 Gene
NURSA nuclear receptor signaling pathways regulating expression of HERC3 Gene:
HERC3SOURCE GeneReport for Unigene cluster for HERC3 Gene:
Hs.35804Evidence on tissue expression from TISSUES for HERC3 Gene
- Nervous system(4.7)
- Bone marrow(4.2)
- Skin(4.2)
Primer Products
-
OriGene qPCR primer pairs for HERC3
-
OriGene qPCR primer pairs and template standards for HERC3
- genomics-online: primer clones - Search results for available HERC3 gene related products
Gene Expression Assay 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.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| chimpanzee (Pan troglodytes) |
Mammalia | HERC3 33 |
|
||
| dog (Canis familiaris) |
Mammalia | HERC3 34 33 |
|
OneToOne | |
| oppossum (Monodelphis domestica) |
Mammalia | HERC3 34 |
|
OneToOne | |
| cow (Bos Taurus) |
Mammalia | HERC3 34 33 |
|
OneToOne | |
| mouse (Mus musculus) |
Mammalia | Herc3 16 34 33 |
|
||
| rat (Rattus norvegicus) |
Mammalia | Herc3 33 |
|
||
| platypus (Ornithorhynchus anatinus) |
Mammalia | -- 34 |
|
ManyToMany | |
| chicken (Gallus gallus) |
Aves | HERC3 34 33 |
|
OneToOne | |
| lizard (Anolis carolinensis) |
Reptilia | HERC3 34 |
|
OneToOne | |
| tropical clawed frog (Silurana tropicalis) |
Amphibia | herc3 33 |
|
||
| zebrafish (Danio rerio) |
Actinopterygii | herc3 34 33 |
|
OneToOne | |
| Dr.16537 33 |
|
||||
| rainbow trout (Oncorhynchus mykiss) |
Actinopterygii | Omy.7420 33 |
|
||
| fruit fly (Drosophila melanogaster) |
Insecta | CG9153 34 35 |
|
OneToMany | |
| worm (Caenorhabditis elegans) |
Secernentea | herc-1 34 33 |
|
OneToMany | |
| Y48G8AL.1 35 |
|
|
|||
| baker's yeast (Saccharomyces cerevisiae) |
Saccharomycetes | HUL4 34 |
|
OneToMany |
- 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
- ENSEMBL:
- Gene Tree for HERC3 (if available)
- TreeFam:
- Gene Tree for HERC3 (if available)
- Aminode:
- Evolutionary constrained regions (ECRs) for HERC3: view image
Paralogs for HERC3 Gene
Paralogs for HERC3 Gene
(17) SIMAP similar genes for HERC3 Gene using alignment to 10 proteins:
- HERC3_HUMAN
- C9J6Z1_HUMAN
- C9J8E7_HUMAN
- C9JFL2_HUMAN
- C9JKA7_HUMAN
- D6RAT5_HUMAN
- F5GWU0_HUMAN
- H0Y8G9_HUMAN
- Q4W5H5_HUMAN
- Q8IXX3_HUMAN
Variants for HERC3 Gene
| SNP ID | Clin | Chr 04 pos | Variation | AA Info | Type |
|---|---|---|---|---|---|
| rs1000009906 | -- | 88,623,147(+) | C/G | genic_upstream_transcript_variant, intron_variant | |
| rs1000078195 | -- | 88,622,034(+) | A/G | genic_upstream_transcript_variant, intron_variant | |
| rs10000885 | -- | 88,665,040(+) | C/A | genic_downstream_transcript_variant, genic_upstream_transcript_variant, intron_variant | |
| rs1000110501 | -- | 88,674,272(+) | G/A | genic_downstream_transcript_variant, intron_variant | |
| rs1000119420 | -- | 88,617,154(+) | A/C | genic_upstream_transcript_variant, intron_variant |
| 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 |
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)
Additional Variant Information for HERC3 Gene
- SNPedia medical, phenotypic, and genealogical associations of SNPs for
- HERC3
SNP Genotyping and Copy Number Assay Products
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HERC3 Gene
Disorders for HERC3 Gene
Additional Disease Information for HERC3
- Genetic Association Database
- (GAD)
- Human Genome Epidemiology Navigator
- (HuGE)
- 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
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
- HERC3 binding to and regulation by ubiquitin. (PMID: 11163799) Cruz C … Rosa JL (FEBS letters 2001) 3 4 58
- The human HERC3 gene maps to chromosome 4q21 by fluorescence in situ hybridization. (PMID: 10702688) Cruz C … Rosa JL (Cytogenetics and cell genetics 1999) 2 3 58
- 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 research : an international journal for rapid publication of reports on genes and genomes 1994) 3 4 58
- Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
Products for HERC3 Gene
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- Mammalian expression: PiggyBac
- Mammalian Tet-on expression: plasmid
- Mammalian conditional (Cre-Lox): plasmid and PiggyBac
- Mammalian shRNA knockdown: lentiviral, adenoviral, AAV, and PiggyBac
- CRISPR: plasmid gRNA, lentiviral gRNA, and donor plasmid
- Bacterial expression: pET, pBAD, and pCS
- Yeast expression
- antibodies-online: Search results for 63 available HERC3 Antibodies ranked by validation data
- Compare Top HERC3 Antibodies
- antibodies-online: Search results for available HERC3 related products ranked by validation data
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- GeneTex HERC3 Antibody for HERC3
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- Santa Cruz Biotechnology (SCBT) Antibodies for HERC3
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- genomics-online: cdna clones - Search results for available HERC3 gene related products
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Sources for HERC3 Gene
- (1) GeneCards
- (2) HGNC
- (3) EntrezGene
- (4) Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
- (8) Gene Wiki
- (9) UCSC
- (10) PhosphoSitePlus
- (11) GO
- (12) TrEMBL
- (13) InterPro
- (14) ProtoNet
- (15) Blocks
- (16) MGI
- (17) IUBMB
- (18) KEGG
- (19) MINT
- (20) STRING
- (21) IntAct
- (22) Novoseek
- (23) PharmGKB
- (24) DrugBank
- (25) HMDB
- (26) UniGene
- (27) AceView
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