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Aliases for SETD3 Gene

Aliases for SETD3 Gene

  • SET Domain Containing 3 2 3 5
  • SET Domain-Containing Protein 3 3 4
  • C14orf154 3 4
  • Histone-Lysine N-Methyltransferase Setd3 3
  • Chromosome 14 Open Reading Frame 154 2
  • EC 2.1.1.43 4

External Ids for SETD3 Gene

Previous HGNC Symbols for SETD3 Gene

  • C14orf154

Previous GeneCards Identifiers for SETD3 Gene

  • GC14M098934
  • GC14M099864
  • GC14M080047

Summaries for SETD3 Gene

GeneCards Summary for SETD3 Gene

SETD3 (SET Domain Containing 3) is a Protein Coding gene. Among its related pathways are Lysine degradation and PKMTs methylate histone lysines. GO annotations related to this gene include transcription coactivator activity and histone methyltransferase activity (H3-K4 specific). An important paralog of this gene is SETD4.

UniProtKB/Swiss-Prot for SETD3 Gene

  • Histone methyltransferase that methylates Lys-4 and Lys-36 of histone H3 (H3K4me and H3K36me). Acts as a transcriptional activator. Plays an important role in the transcriptional regulation of muscle cell differentiation via interaction with MYOD1.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SETD3 Gene

Genomics for SETD3 Gene

Regulatory Elements for SETD3 Gene

Enhancers for SETD3 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
GH14G099435 0.9 Ensembl ENCODE 16.4 +44.4 44436 2.3 RFX1 SAP130 MAX ZBTB7B YY1 NR2F2 ZFHX2 JUND ZSCAN5C MAFK SETD3 CCNK GC14P099446 ENSG00000258383
GH14G099225 2.8 FANTOM5 Ensembl ENCODE dbSUPER 4.4 +250.1 250138 11.4 HDGF PKNOX1 INSM2 YBX1 FEZF1 ZNF2 GLIS2 ZNF366 ZSCAN5C SCRT2 RPL3P4 BCL11B SETD3 GC14M099237 GC14M099236 GC14P099215
GH14G099502 1 ENCODE dbSUPER 11.3 -21.9 -21919 2.0 CTCF SIN3A RBBP5 ZBTB7B CTBP1 POLR2A ZSCAN5C FOS RFX1 RNF2 SETD3 CCNK CCDC85C ENSG00000247970 GC14M099501 ENSG00000258749
GH14G099415 1 Ensembl ENCODE 10.2 +65.6 65618 0.4 ELF3 CTCF PKNOX1 ZNF384 RAD21 ZNF143 SMC3 ZNF391 ZNF362 ZNF654 SETD3 CCNK GC14P099446 ENSG00000258383
GH14G099411 0.8 ENCODE 10 +68.6 68582 2.2 TEAD4 INSM2 FEZF1 ZNF316 ZFHX2 ZNF366 GLI2 SCRT2 SMC3 FOS CCNK SETD3 GC14P099446 ENSG00000258383
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SETD3 on UCSC Golden Path with GeneCards custom track

Promoters for SETD3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000072951 418 3201 HDGF PKNOX1 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B YY1

Genomic Location for SETD3 Gene

Chromosome:
14
Start:
99,397,746 bp from pter
End:
99,481,418 bp from pter
Size:
83,673 bases
Orientation:
Minus strand

Genomic View for SETD3 Gene

Genes around SETD3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SETD3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SETD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SETD3 Gene

Proteins for SETD3 Gene

  • Protein details for SETD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86TU7-SETD3_HUMAN
    Recommended name:
    Histone-lysine N-methyltransferase setd3
    Protein Accession:
    Q86TU7
    Secondary Accessions:
    • A0PJU3
    • A5PLP0
    • B4DZE8
    • Q0VAQ2
    • Q659C0
    • Q86TU8
    • Q96GY9
    • Q9H5U5

    Protein attributes for SETD3 Gene

    Size:
    594 amino acids
    Molecular mass:
    67257 Da
    Quaternary structure:
    • Interacts with MYOD1.
    SequenceCaution:
    • Sequence=BAB15525.1; Type=Frameshift; Positions=486, 495; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SETD3 Gene

    Alternative splice isoforms for SETD3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SETD3 Gene

Post-translational modifications for SETD3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SETD3 Gene

Domains & Families for SETD3 Gene

Gene Families for SETD3 Gene

Protein Domains for SETD3 Gene

Suggested Antigen Peptide Sequences for SETD3 Gene

Graphical View of Domain Structure for InterPro Entry

Q86TU7

UniProtKB/Swiss-Prot:

SETD3_HUMAN :
  • Belongs to the class V-like SAM-binding methyltransferase superfamily. Histone-lysine methyltransferase family. SETD3 subfamily.
Family:
  • Belongs to the class V-like SAM-binding methyltransferase superfamily. Histone-lysine methyltransferase family. SETD3 subfamily.
genes like me logo Genes that share domains with SETD3: view

Function for SETD3 Gene

Molecular function for SETD3 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].
UniProtKB/Swiss-Prot Function:
Histone methyltransferase that methylates Lys-4 and Lys-36 of histone H3 (H3K4me and H3K36me). Acts as a transcriptional activator. Plays an important role in the transcriptional regulation of muscle cell differentiation via interaction with MYOD1.

Enzyme Numbers (IUBMB) for SETD3 Gene

Gene Ontology (GO) - Molecular Function for SETD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001102 RNA polymerase II activating transcription factor binding IEA --
GO:0003713 transcription coactivator activity ISS,IEA --
GO:0008168 methyltransferase activity IEA --
GO:0016740 transferase activity IEA --
GO:0018024 histone-lysine N-methyltransferase activity TAS,IEA --
genes like me logo Genes that share ontologies with SETD3: view
genes like me logo Genes that share phenotypes with SETD3: view

Animal Models for SETD3 Gene

MGI Knock Outs for SETD3:

Animal Model Products

  • Taconic Biosciences Mouse Models for SETD3

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for SETD3

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SETD3 Gene

Localization for SETD3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SETD3 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 SETD3 gene
Compartment Confidence
nucleus 5
mitochondrion 3
cytosol 2

Gene Ontology (GO) - Cellular Components for SETD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000790 nuclear chromatin IBA --
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with SETD3: view

Pathways & Interactions for SETD3 Gene

genes like me logo Genes that share pathways with SETD3: view

Pathways by source for SETD3 Gene

1 BioSystems pathway for SETD3 Gene
1 KEGG pathway for SETD3 Gene

Gene Ontology (GO) - Biological Process for SETD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0010452 histone H3-K36 methylation ISS,IEA --
GO:0016569 covalent chromatin modification IEA --
GO:0018022 peptidyl-lysine methylation IEA --
genes like me logo Genes that share ontologies with SETD3: view

No data available for SIGNOR curated interactions for SETD3 Gene

Drugs & Compounds for SETD3 Gene

(2) Drugs for SETD3 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
S-Adenosylmethionine Approved Nutra 0
s-adenosylhomocysteine Experimental Pharma 0
genes like me logo Genes that share compounds with SETD3: view

Transcripts for SETD3 Gene

Unigene Clusters for SETD3 Gene

SET domain containing 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for SETD3

Alternative Splicing Database (ASD) splice patterns (SP) for SETD3 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b ^ 15a · 15b · 15c
SP1: - - - - -
SP2: - - -
SP3: - - - -
SP4: -
SP5: - - -
SP6:
SP7: - - - - -
SP8:

Relevant External Links for SETD3 Gene

GeneLoc Exon Structure for
SETD3
ECgene alternative splicing isoforms for
SETD3

Expression for SETD3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SETD3 Gene

Protein differential expression in normal tissues from HIPED for SETD3 Gene

This gene is overexpressed in Testis (11.2), Peripheral blood mononuclear cells (7.3), and Spleen (6.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SETD3 Gene



Protein tissue co-expression partners for SETD3 Gene

NURSA nuclear receptor signaling pathways regulating expression of SETD3 Gene:

SETD3

SOURCE GeneReport for Unigene cluster for SETD3 Gene:

Hs.510407

Evidence on tissue expression from TISSUES for SETD3 Gene

  • Nervous system(4.6)
  • Lung(4.4)
  • Eye(4.2)
  • Kidney(2.1)
  • Heart(2)
genes like me logo Genes that share expression patterns with SETD3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SETD3 Gene

Orthologs for SETD3 Gene

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

Orthologs for SETD3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SETD3 34 35
  • 99.49 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 92 (a)
OneToMany
-- 35
  • 85 (a)
OneToMany
-- 35
  • 81 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Setd3 34
  • 87.77 (n)
mouse
(Mus musculus)
Mammalia Setd3 34 16 35
  • 87.44 (n)
oppossum
(Monodelphis domestica)
Mammalia SETD3 35
  • 87 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SETD3 34 35
  • 86.6 (n)
cow
(Bos Taurus)
Mammalia SETD3 34 35
  • 86.58 (n)
chicken
(Gallus gallus)
Aves -- 35
  • 88 (a)
OneToMany
-- 35
  • 81 (a)
OneToMany
LOC100859337 34
  • 79.73 (n)
SETD3 35
  • 78 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 83 (a)
OneToMany
-- 35
  • 80 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia setd3 34
  • 74.48 (n)
Str.4852 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.15711 34
zebrafish
(Danio rerio)
Actinopterygii setd3 34 35
  • 69.03 (n)
wufb01d12 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002018 34
  • 45.15 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG32732 35
  • 27 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea set-27 34 35
  • 45.37 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU08733 34
  • 41.06 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 38 (a)
OneToOne
Species where no ortholog for SETD3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 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 SETD3 Gene

ENSEMBL:
Gene Tree for SETD3 (if available)
TreeFam:
Gene Tree for SETD3 (if available)

Paralogs for SETD3 Gene

Paralogs for SETD3 Gene

genes like me logo Genes that share paralogs with SETD3: view

Variants for SETD3 Gene

Sequence variations from dbSNP and Humsavar for SETD3 Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
rs1000000410 -- 99,408,748(+) GAGGC(G/T)GAGTG intron-variant
rs1000006623 -- 99,410,147(+) GAGTC(C/T)CGTAA intron-variant, utr-variant-3-prime
rs1000031184 -- 99,456,505(+) TTAGT(C/G)ATGTA intron-variant
rs1000060854 -- 99,450,065(+) GGACA(C/T)TCCTG intron-variant
rs1000072731 -- 99,474,343(+) TAAAT(A/T)AAATA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SETD3 Gene

Variant ID Type Subtype PubMed ID
esv3635481 CNV gain 21293372
esv997017 OTHER inversion 20482838
nsv832871 CNV gain 17160897
nsv832872 CNV loss 17160897

Variation tolerance for SETD3 Gene

Residual Variation Intolerance Score: 10.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.12; 22.80% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SETD3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SETD3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SETD3 Gene

Disorders for SETD3 Gene

Relevant External Links for SETD3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SETD3

No disorders were found for SETD3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SETD3 Gene

Publications for SETD3 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  3. A fluorescent bimolecular complementation screen reveals MAF1, RNF7 and SETD3 as PCNA-associated proteins in human cells. (PMID: 26030842) Cooper S.E. … Green C.M. (Cell Cycle 2015) 3 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3 64

Products for SETD3 Gene

  • Addgene plasmids for SETD3

Sources for SETD3 Gene

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