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Aliases for SMYD4 Gene

Aliases for SMYD4 Gene

  • SET And MYND Domain Containing 4 2 3 5
  • SET And MYND Domain-Containing Protein 4 3
  • EC 2.1.1.- 4
  • KIAA1936 4
  • ZMYND21 3

External Ids for SMYD4 Gene

Previous GeneCards Identifiers for SMYD4 Gene

  • GC00U911629
  • GC17M001891
  • GC17M001630
  • GC17M001682
  • GC17M001580

Summaries for SMYD4 Gene

GeneCards Summary for SMYD4 Gene

SMYD4 (SET And MYND Domain Containing 4) is a Protein Coding gene. Among its related pathways are PKMTs methylate histone lysines. Gene Ontology (GO) annotations related to this gene include methyltransferase activity.

Gene Wiki entry for SMYD4 Gene

Additional gene information for SMYD4 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SMYD4 Gene

Genomics for SMYD4 Gene

GeneHancer (GH) Regulatory Elements for SMYD4 Gene

Promoters and enhancers for SMYD4 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
GH17I001828 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 579.5 +0.8 753 2.1 HDGF ATF1 MLX ARID4B SIN3A DMAP1 ZNF48 GTF3C2 POLR2B GLIS2 SMYD4 RPA1 PRPF8 WDR81 RN7SL608P METTL16 ENSG00000262777 MNT MIR22HG
GH17I001294 Enhancer 1.4 FANTOM5 ENCODE dbSUPER 136.5 +536.3 536285 1.2 PKNOX1 ATF1 ARNT ZNF493 ZNF133 YBX1 GLI4 ZNF2 BRCA1 ZNF416 PRPF8 SMYD4 RPA1 WDR81 GEMIN4 DPH1 ENSG00000263050 ENSG00000262228 CRK MYO1C
GH17I001293 Enhancer 1.2 ENCODE dbSUPER 136.5 +536.9 536940 0.1 PKNOX1 ARNT YBX1 ZNF2 E2F8 ZNF416 ZNF207 ZNF548 FOS KLF13 PRPF8 SMYD4 RPA1 WDR81 GEMIN4 DPH1 ENSG00000263050 ENSG00000262228 MYO1C HIC1
GH17I001712 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 57.6 +114.9 114860 7 MLX DMAP1 YBX1 YY1 ZNF143 SP3 NFYC MEF2D SSRP1 ZNF610 WDR81 MIR22HG MIR22 GC17M001715 SMYD4 PRPF8 GEMIN4 RPA1 SERPINF2 METTL16
GH17I001721 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 38.3 +106.6 106621 4.1 HDGF PKNOX1 CLOCK MLX ZFP64 ARID4B SIN3A DMAP1 IRF4 ZNF143 WDR81 SMYD4 PRPF8 RPA1 DPH1 RN7SL608P METTL16 SERPINF2 TLCD2 ENSG00000263050
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SMYD4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SMYD4 gene promoter:

Genomic Locations for SMYD4 Gene

Genomic Locations for SMYD4 Gene
chr17:1,779,485-1,830,634
(GRCh38/hg38)
Size:
51,150 bases
Orientation:
Minus strand
chr17:1,682,779-1,733,928
(GRCh37/hg19)

Genomic View for SMYD4 Gene

Genes around SMYD4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SMYD4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SMYD4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMYD4 Gene

Proteins for SMYD4 Gene

  • Protein details for SMYD4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IYR2-SMYD4_HUMAN
    Recommended name:
    SET and MYND domain-containing protein 4
    Protein Accession:
    Q8IYR2
    Secondary Accessions:
    • Q8N1P2
    • Q8NAT0
    • Q96LV4
    • Q96PV2

    Protein attributes for SMYD4 Gene

    Size:
    804 amino acids
    Molecular mass:
    89225 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SMYD4 Gene

Post-translational modifications for SMYD4 Gene

  • Ubiquitination at isoforms=717
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SMYD4 Gene

Domains & Families for SMYD4 Gene

Gene Families for SMYD4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for SMYD4 Gene

Suggested Antigen Peptide Sequences for SMYD4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8IYR2

UniProtKB/Swiss-Prot:

SMYD4_HUMAN :
  • Belongs to the class V-like SAM-binding methyltransferase superfamily.
Family:
  • Belongs to the class V-like SAM-binding methyltransferase superfamily.
genes like me logo Genes that share domains with SMYD4: view

Function for SMYD4 Gene

Enzyme Numbers (IUBMB) for SMYD4 Gene

Phenotypes From GWAS Catalog for SMYD4 Gene

Gene Ontology (GO) - Molecular Function for SMYD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008168 methyltransferase activity IEA --
GO:0016740 transferase activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with SMYD4: view
genes like me logo Genes that share phenotypes with SMYD4: view

Animal Models for SMYD4 Gene

MGI Knock Outs for SMYD4:

Animal Model Products

Clone Products

No data available for Molecular function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SMYD4 Gene

Localization for SMYD4 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 SMYD4 gene
Compartment Confidence
nucleus 3
cytosol 3
golgi apparatus 2
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Golgi apparatus (2)
  • Nucleoplasm (2)
  • Vesicles (2)
See all subcellular structures

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for SMYD4 Gene

Pathways & Interactions for SMYD4 Gene

SuperPathways for SMYD4 Gene

SuperPathway Contained pathways
1 PKMTs methylate histone lysines
genes like me logo Genes that share pathways with SMYD4: view

Pathways by source for SMYD4 Gene

1 GeneTex pathway for SMYD4 Gene
1 BioSystems pathway for SMYD4 Gene

Interacting Proteins for SMYD4 Gene

Gene Ontology (GO) - Biological Process for SMYD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0032259 methylation IEA --
genes like me logo Genes that share ontologies with SMYD4: view

No data available for SIGNOR curated interactions for SMYD4 Gene

Drugs & Compounds for SMYD4 Gene

No Compound Related Data Available

Transcripts for SMYD4 Gene

Unigene Clusters for SMYD4 Gene

SET and MYND domain containing 4:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SMYD4 Gene

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

Relevant External Links for SMYD4 Gene

GeneLoc Exon Structure for
SMYD4
ECgene alternative splicing isoforms for
SMYD4

Expression for SMYD4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SMYD4 Gene

Protein differential expression in normal tissues from HIPED for SMYD4 Gene

This gene is overexpressed in Monocytes (18.6), Fetal gut (18.4), Bone (14.7), and Fetal ovary (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SMYD4 Gene



NURSA nuclear receptor signaling pathways regulating expression of SMYD4 Gene:

SMYD4

SOURCE GeneReport for Unigene cluster for SMYD4 Gene:

Hs.514602

Evidence on tissue expression from TISSUES for SMYD4 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with SMYD4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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 SMYD4 Gene

Orthologs for SMYD4 Gene

This gene was present in the common ancestor of animals.

Orthologs for SMYD4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SMYD4 33 34
  • 98.92 (n)
dog
(Canis familiaris)
Mammalia SMYD4 33 34
  • 82.07 (n)
cow
(Bos Taurus)
Mammalia SMYD4 33 34
  • 81.69 (n)
mouse
(Mus musculus)
Mammalia Smyd4 33 16 34
  • 79.48 (n)
rat
(Rattus norvegicus)
Mammalia Smyd4 33
  • 79.07 (n)
oppossum
(Monodelphis domestica)
Mammalia SMYD4 34
  • 56 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SMYD4 34
  • 55 (a)
OneToOne
chicken
(Gallus gallus)
Aves SMYD4 33 34
  • 58.48 (n)
lizard
(Anolis carolinensis)
Reptilia SMYD4 34
  • 50 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia smyd4 33
  • 53.21 (n)
zebrafish
(Danio rerio)
Actinopterygii smyd4 33 34
  • 48.24 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008839 33
  • 44.08 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG7759 33 34
  • 42.87 (n)
CG8378 34
  • 26 (a)
OneToMany
Smyd4 34
  • 22 (a)
OneToMany
CG1868 34
  • 21 (a)
OneToMany
dao 34
  • 15 (a)
OneToMany
Species where no ortholog for SMYD4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for SMYD4 Gene

ENSEMBL:
Gene Tree for SMYD4 (if available)
TreeFam:
Gene Tree for SMYD4 (if available)

Paralogs for SMYD4 Gene

No data available for Paralogs for SMYD4 Gene

Variants for SMYD4 Gene

Sequence variations from dbSNP and Humsavar for SMYD4 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000028568 -- 1,817,907(-) C/T intron_variant
rs1000044210 -- 1,829,894(-) A/AA 5_prime_UTR_variant, genic_upstream_transcript_variant, upstream_transcript_variant
rs1000059868 -- 1,817,745(-) T/A intron_variant
rs1000175689 -- 1,786,957(-) C/T coding_sequence_variant, non_coding_transcript_variant, synonymous_variant
rs1000178507 -- 1,824,921(-) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SMYD4 Gene

Variant ID Type Subtype PubMed ID
esv33335 CNV loss 17666407
esv3639699 CNV loss 21293372
nsv1065585 CNV gain 25217958
nsv1946 CNV insertion 18451855
nsv574215 CNV gain 21841781
nsv833335 CNV gain+loss 17160897
nsv9490 CNV loss 18304495

Variation tolerance for SMYD4 Gene

Residual Variation Intolerance Score: 79% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 23.14; 99.51% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SMYD4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SMYD4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SMYD4 Gene

Disorders for SMYD4 Gene

Additional Disease Information for SMYD4

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

No disorders were found for SMYD4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SMYD4 Gene

Publications for SMYD4 Gene

  1. Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins. (PMID: 11572484) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2001) 2 3 4 58
  2. 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
  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. An Interaction Landscape of Ubiquitin Signaling. (PMID: 28190767) Zhang X … Vermeulen M (Molecular cell 2017) 3 58

Products for SMYD4 Gene

Sources for SMYD4 Gene

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