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Aliases for PRDM6 Gene

Aliases for PRDM6 Gene

  • PR Domain Containing 6 2 3
  • PR Domain Zinc Finger Protein 6 4
  • PR Domain-Containing Protein 6 4
  • EC 2.1.1.43 4
  • PFM3 4

External Ids for PRDM6 Gene

Previous GeneCards Identifiers for PRDM6 Gene

  • GC05P122055
  • GC05P122751
  • GC05P122455
  • GC05P122480
  • GC05P122452
  • GC05U900559
  • GC05P117612
  • GC05P122424

Summaries for PRDM6 Gene

GeneCards Summary for PRDM6 Gene

PRDM6 (PR Domain Containing 6) is a Protein Coding gene. GO annotations related to this gene include protein homodimerization activity and histone-lysine N-methyltransferase activity. An important paralog of this gene is PRDM11.

UniProtKB/Swiss-Prot for PRDM6 Gene

  • Putative histone methyltransferase that acts as a transcriptional repressor of smooth muscle gene expression. Promotes the transition from differentiated to proliferative smooth muscle by suppressing differentiation and maintaining the proliferative potential of vascular smooth muscle cells. Also plays a role in endothelial cells by inhibiting endothelial cell proliferation, survival and differentiation. It is unclear whether it has histone methyltransferase activity in vivo. According to some authors, it does not act as a histone methyltransferase by itself and represses transcription by recruiting EHMT2/G9a. According to others, it possesses histone methyltransferase activity when associated with other proteins and specifically methylates Lys-20 of histone H4 in vitro. Lys-20 methylation represents a specific tag for epigenetic transcriptional repression (By similarity).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRDM6 Gene

Genomics for PRDM6 Gene

Regulatory Elements for PRDM6 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for PRDM6 Gene

Start:
123,089,121 bp from pter
End:
123,194,266 bp from pter
Size:
105,146 bases
Orientation:
Plus strand

Genomic View for PRDM6 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PRDM6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRDM6 Gene

Proteins for PRDM6 Gene

  • Protein details for PRDM6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NQX0-PRDM6_HUMAN
    Recommended name:
    Putative histone-lysine N-methyltransferase PRDM6
    Protein Accession:
    Q9NQX0
    Secondary Accessions:
    • B5MCJ4
    • Q9NQW9

    Protein attributes for PRDM6 Gene

    Size:
    595 amino acids
    Molecular mass:
    64452 Da
    Quaternary structure:
    • Interacts with HDAC1, HDAC2, HDAC3, CBX1 and EP300.
    SequenceCaution:
    • Sequence=AAF78078.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAF78079.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for PRDM6 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PRDM6 Gene

Proteomics data for PRDM6 Gene at MOPED

Post-translational modifications for PRDM6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PRDM6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PRDM6 Gene

Domains for PRDM6 Gene

Gene Families for PRDM6 Gene

HGNC:
  • ZNF :Zinc fingers, C2H2-type

Protein Domains for PRDM6 Gene

Suggested Antigen Peptide Sequences for PRDM6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NQX0

UniProtKB/Swiss-Prot:

PRDM6_HUMAN :
  • Q9NQX0
Domain:
  • Contains 1 SET domain.
Family:
  • Belongs to the class V-like SAM-binding methyltransferase superfamily.
Similarity:
  • Contains 4 C2H2-type zinc fingers.
genes like me logo Genes that share domains with PRDM6: view

Function for PRDM6 Gene

Molecular function for PRDM6 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: Putative histone methyltransferase that acts as a transcriptional repressor of smooth muscle gene expression. Promotes the transition from differentiated to proliferative smooth muscle by suppressing differentiation and maintaining the proliferative potential of vascular smooth muscle cells. Also plays a role in endothelial cells by inhibiting endothelial cell proliferation, survival and differentiation. It is unclear whether it has histone methyltransferase activity in vivo. According to some authors, it does not act as a histone methyltransferase by itself and represses transcription by recruiting EHMT2/G9a. According to others, it possesses histone methyltransferase activity when associated with other proteins and specifically methylates Lys-20 of histone H4 in vitro. Lys-20 methylation represents a specific tag for epigenetic transcriptional repression (By similarity).

Enzyme Numbers (IUBMB) for PRDM6 Gene

Gene Ontology (GO) - Molecular Function for PRDM6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0005515 protein binding --
GO:0018024 histone-lysine N-methyltransferase activity IEA --
GO:0042803 protein homodimerization activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with PRDM6: view

Animal Model Products

CRISPR Products

No data available for Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for PRDM6 Gene

Localization for PRDM6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PRDM6 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PRDM6 Gene COMPARTMENTS Subcellular localization image for PRDM6 gene
Compartment Confidence
nucleus 3

Gene Ontology (GO) - Cellular Components for PRDM6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with PRDM6: view

Pathways for PRDM6 Gene

SuperPathways for PRDM6 Gene

No Data Available

Interacting Proteins for PRDM6 Gene

Gene Ontology (GO) - Biological Process for PRDM6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0022008 neurogenesis IEA --
GO:0034968 histone lysine methylation IEA --
GO:0045892 negative regulation of transcription, DNA-templated IEA --
GO:0051151 negative regulation of smooth muscle cell differentiation IEA --
genes like me logo Genes that share ontologies with PRDM6: view

No data available for Pathways by source for PRDM6 Gene

Transcripts for PRDM6 Gene

mRNA/cDNA for PRDM6 Gene

(2) Additional mRNA sequences :
(4) REFSEQ mRNAs :
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PRDM6 Gene

PR domain containing 6:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PRDM6

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for PRDM6

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PRDM6 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9
SP1:
SP2: - -
SP3: -
SP4:

Relevant External Links for PRDM6 Gene

GeneLoc Exon Structure for
PRDM6
ECgene alternative splicing isoforms for
PRDM6

Expression for PRDM6 Gene

mRNA expression in normal human tissues for PRDM6 Gene

mRNA differential expression in normal tissues according to GTEx for PRDM6 Gene

This gene is overexpressed in Artery - Aorta (12.0), Bladder (7.4), Artery - Tibial (5.6), and Artery - Coronary (4.7).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for PRDM6 Gene

SOURCE GeneReport for Unigene cluster for PRDM6 Gene Hs.135118

genes like me logo Genes that share expressions with PRDM6: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for PRDM6 Gene

Orthologs for PRDM6 Gene

This gene was present in the common ancestor of animals.

Orthologs for PRDM6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PRDM6 35
  • 97.7 (n)
  • 98.31 (a)
PRDM6 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PRDM6 35
  • 91.71 (n)
  • 94.89 (a)
PRDM6 36
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PRDM6 35
  • 92.82 (n)
  • 97.31 (a)
PRDM6 36
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Prdm6 35
  • 87.16 (n)
  • 92.06 (a)
Prdm6 16
Prdm6 36
  • 95 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PRDM6 36
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PRDM6 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Prdm6 35
  • 88.89 (n)
  • 95.12 (a)
chicken
(Gallus gallus)
Aves PRDM6 35
  • 82.16 (n)
  • 88.87 (a)
PRDM6 36
  • 91 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PRDM6 36
  • 81 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.12311 35
tropical clawed frog
(Silurana tropicalis)
Amphibia prdm6 35
  • 79.77 (n)
  • 91.63 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC101886516 35
  • 75.24 (n)
  • 84.29 (a)
prdm6 36
  • 91 (a)
OneToMany
PRDM6 (2 of 2) 36
  • 87 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea set-17 36
  • 17 (a)
OneToMany
Species with no ortholog for PRDM6:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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 PRDM6 Gene

ENSEMBL:
Gene Tree for PRDM6 (if available)
TreeFam:
Gene Tree for PRDM6 (if available)

Paralogs for PRDM6 Gene

Paralogs for PRDM6 Gene

genes like me logo Genes that share paralogs with PRDM6: view

Variants for PRDM6 Gene

Sequence variations from dbSNP and Humsavar for PRDM6 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type MAF
rs68573 -- 123,152,002(-) TTTTT(G/T)TTTTT intron-variant
rs151283 -- 123,110,924(+) CAATC(A/C)AGGTT intron-variant
rs162951 -- 123,102,728(+) AGAAA(A/T)GTCTT intron-variant
rs162952 -- 123,169,438(+) ACACC(C/T)GTCGC intron-variant
rs162953 -- 123,163,954(-) CCGTG(A/C)AGAGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PRDM6 Gene

Variant ID Type Subtype PubMed ID
nsv520349 CNV Loss 19592680
esv2730710 CNV Deletion 23290073
esv2730712 CNV Deletion 23290073
esv2730713 CNV Deletion 23290073
nsv4979 CNV Insertion 18451855

Relevant External Links for PRDM6 Gene

HapMap Linkage Disequilibrium report
PRDM6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PRDM6 Gene

Disorders for PRDM6 Gene

Relevant External Links for PRDM6

Genetic Association Database (GAD)
PRDM6
Human Genome Epidemiology (HuGE) Navigator
PRDM6
genes like me logo Genes that share disorders with PRDM6: view

No data available for UniProtKB/Swiss-Prot for PRDM6 Gene

Publications for PRDM6 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 48
  2. Genome-wide association with bone mass and geometry in the Framingham Heart Study. (PMID: 17903296) Kiel D.P. … Karasik D. (BMC Med. Genet. 2007) 48
  3. Genome-wide association with diabetes-related traits in the Framingham Heart Study. (PMID: 17903298) Meigs J.B. … Dupuis J. (BMC Med. Genet. 2007) 48
  4. Genetic variants associated with cardiac structure and function: a meta-analysis and replication of genome-wide association data. (PMID: 19584346) Vasan R.S. … Blankenberg S. (JAMA 2009) 48
  5. Hundreds of variants clustered in genomic loci and biological pathways affect human height. (PMID: 20881960) Lango Allen H. … Hirschhorn J.N. (Nature 2010) 48

Products for PRDM6 Gene

Sources for PRDM6 Gene

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