Free for academic non-profit institutions. Other users need a Commercial license

Aliases for PRDM7 Gene

Aliases for PRDM7 Gene

  • PR/SET Domain 7 2 3 5
  • PR Domain Zinc Finger Protein 7 3 4
  • PR Domain Containing 7 2 3
  • PR Domain 7 2 3
  • EC 4 56
  • PFM4 3 4
  • Probable Histone-Lysine N-Methyltransferase PRDM7 3
  • PR Domain-Containing Protein 7 4
  • PR-Domain Family Protein 4 3
  • ZNF910 3

External Ids for PRDM7 Gene

Previous GeneCards Identifiers for PRDM7 Gene

  • GC16M081443
  • GC16M091111
  • GC16M089824
  • GC16M089865
  • GC16M088650
  • GC16M090122
  • GC16M075814

Summaries for PRDM7 Gene

Entrez Gene Summary for PRDM7 Gene

  • This gene encodes a member of a family of proteins that may have roles in transcription and other nuclear processes. The encoded protein contains a KRAB (Kruppel-associated box) domain -A box and a SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain and may function as a histone methyltransferase. [provided by RefSeq, Aug 2013]

GeneCards Summary for PRDM7 Gene

PRDM7 (PR/SET Domain 7) is a Protein Coding gene. Among its related pathways are Gene Expression and Lysine degradation. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and histone-lysine N-methyltransferase activity. An important paralog of this gene is PRDM9.

UniProtKB/Swiss-Prot for PRDM7 Gene

  • Probable histone methyltransferase.

Additional gene information for PRDM7 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRDM7 Gene

Genomics for PRDM7 Gene

GeneHancer (GH) Regulatory Elements for PRDM7 Gene

Promoters and enhancers for PRDM7 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH16I090018 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 16.4 +71.0 70967 5.3 HDGF PKNOX1 CLOCK FOXA2 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 DBNDD1 GAS8 DEF8 PRDM7 ACSF3 ANKRD11 SNORD68 URAHP GAS8-AS1 TUBB3
GH16I089853 Enhancer 0.6 FANTOM5 dbSUPER 3.4 +238.6 238570 0.1 RXRA HNF4A LOC105371419 GAS8-AS1 DBNDD1 PRDM7 DPEP1 SPIRE2
GH16I090076 Enhancer 1.4 FANTOM5 Ensembl ENCODE 0.4 +14.2 14225 1.9 PKNOX1 CLOCK ARNT SIN3A ZNF2 GLIS2 E2F8 ARID2 ZNF143 FOS CDK10 ZNF778 ENSG00000261172 SPATA2L ZNF276 TCF25 VPS9D1 SPATA33 PRDM7 URAHP
GH16I090081 Enhancer 1.2 Ensembl ENCODE 0.4 +9.7 9695 1.6 HDGF SMAD1 ARID4B SIN3A ZNF2 YY1 POLR2B ZNF766 ZNF143 DEK DEF8 CDK10 ENSG00000261172 TUBB8P7 FANCA FAM157C PRDM7 URAHP
GH16I090057 Enhancer 0.8 ENCODE 0.3 +34.2 34194 1 HDAC1 FOXA2 TAF9B ZBTB40 BATF TCF12 EGR1 CREM EGR2 ZBTB11 ENSG00000261172 URAHP PRDM7
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PRDM7 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PRDM7 gene promoter:

Genomic Locations for PRDM7 Gene

Genomic Locations for PRDM7 Gene
35,507 bases
Minus strand

Genomic View for PRDM7 Gene

Genes around PRDM7 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PRDM7 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PRDM7 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRDM7 Gene

Proteins for PRDM7 Gene

  • Protein details for PRDM7 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Probable histone-lysine N-methyltransferase PRDM7
    Protein Accession:
    Secondary Accessions:
    • A4Q9G8
    • Q08EM4
    • Q9NQW4

    Protein attributes for PRDM7 Gene

    492 amino acids
    Molecular mass:
    55777 Da
    Quaternary structure:
    No Data Available
    • The mouse orthologous protein seems not to exist. According to PubMed:17916234, human PRDM7 and PRDM9 genes, a pair of close paralogs corresponding to a single mouse gene Prdm9, were generated by a recent gene duplication event after the divergence of the ancestors of human and mouse.

    Alternative splice isoforms for PRDM7 Gene


neXtProt entry for PRDM7 Gene

Selected DME Specific Peptides for PRDM7 Gene


Post-translational modifications for PRDM7 Gene

No Post-translational modifications

Domains & Families for PRDM7 Gene

Gene Families for PRDM7 Gene

Suggested Antigen Peptide Sequences for PRDM7 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with PRDM7: view

No data available for UniProtKB/Swiss-Prot for PRDM7 Gene

Function for PRDM7 Gene

Molecular function for PRDM7 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:
Probable histone methyltransferase.

Enzyme Numbers (IUBMB) for PRDM7 Gene

Gene Ontology (GO) - Molecular Function for PRDM7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0008168 methyltransferase activity IEA --
GO:0016740 transferase activity IEA --
GO:0018024 histone-lysine N-methyltransferase activity IEA --
genes like me logo Genes that share ontologies with PRDM7: view
genes like me logo Genes that share phenotypes with PRDM7: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PRDM7 Gene

Localization for PRDM7 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PRDM7 Gene

Nucleus. Chromosome.

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 PRDM7 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (1)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PRDM7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IEA --
GO:0005694 chromosome IEA --
genes like me logo Genes that share ontologies with PRDM7: view

Pathways & Interactions for PRDM7 Gene

genes like me logo Genes that share pathways with PRDM7: view

Pathways by source for PRDM7 Gene

2 Reactome pathways for PRDM7 Gene
1 KEGG pathway for PRDM7 Gene

Gene Ontology (GO) - Biological Process for PRDM7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0016569 covalent chromatin modification IEA --
GO:0032259 methylation IEA --
GO:0034968 histone lysine methylation IEA --
genes like me logo Genes that share ontologies with PRDM7: view

No data available for SIGNOR curated interactions for PRDM7 Gene

Drugs & Compounds for PRDM7 Gene

(1) Drugs for PRDM7 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
s-adenosylhomocysteine Experimental Pharma 0

(1) Additional Compounds for PRDM7 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • (3S)-5'-[(3-amino-3-carboxypropyl)methylsulfonio]-5'-deoxyadenosine
  • 2-S-Adenosyl-L-methionine
  • 5'-Deoxyadenosine-5'-L-methionine disulfate ditosylate
  • 5'-Deoxyadenosine-5'-L-methionine disulphate ditosylate
  • Active methionine
genes like me logo Genes that share compounds with PRDM7: view

Transcripts for PRDM7 Gene

mRNA/cDNA for PRDM7 Gene

(8) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(6) Selected AceView cDNA sequences:
(5) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PRDM7 Gene

PR domain containing 7:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for PRDM7 Gene

No ASD Table

Relevant External Links for PRDM7 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PRDM7 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PRDM7 Gene

mRNA differential expression in normal tissues according to GTEx for PRDM7 Gene

This gene is overexpressed in Testis (x40.9).

Protein differential expression in normal tissues from HIPED for PRDM7 Gene

This gene is overexpressed in Frontal cortex (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PRDM7 Gene

Protein tissue co-expression partners for PRDM7 Gene

NURSA nuclear receptor signaling pathways regulating expression of PRDM7 Gene:


SOURCE GeneReport for Unigene cluster for PRDM7 Gene:

genes like me logo Genes that share expression patterns with PRDM7: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for PRDM7 Gene

Orthologs for PRDM7 Gene

This gene was present in the common ancestor of animals.

Orthologs for PRDM7 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PRDM7 34
  • 97 (a)
(Monodelphis domestica)
Mammalia PRDM7 34
  • 57 (a)
(Bos Taurus)
Mammalia PRDM7 34
  • 56 (a)
(Ornithorhynchus anatinus)
Mammalia PRDM7 34
  • 1 (a)
(Danio rerio)
Actinopterygii PRDM7 34
  • 2 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG43347 34
  • 3 (a)
(Caenorhabditis elegans)
Secernentea set-17 33
  • 46.25 (n)
Species where no ortholog for PRDM7 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for PRDM7 Gene

Gene Tree for PRDM7 (if available)
Gene Tree for PRDM7 (if available)

Paralogs for PRDM7 Gene

Paralogs for PRDM7 Gene

(3) SIMAP similar genes for PRDM7 Gene using alignment to 2 proteins: Pseudogenes for PRDM7 Gene

genes like me logo Genes that share paralogs with PRDM7: view

Variants for PRDM7 Gene

Sequence variations from dbSNP and Humsavar for PRDM7 Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs1000043404 -- 90,069,350(-) A/G genic_upstream_transcript_variant, intron_variant
rs1000050610 -- 90,072,829(-) T/C genic_upstream_transcript_variant, intron_variant
rs1000206069 -- 90,074,946(-) A/T coding_sequence_variant, genic_upstream_transcript_variant, missense_variant
rs1000294305 -- 90,062,726(-) T/G intron_variant
rs1001021262 -- 90,056,786(-) A/G 3_prime_UTR_variant, genic_downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for PRDM7 Gene

Variant ID Type Subtype PubMed ID
nsv978180 CNV duplication 23825009
nsv9482 CNV loss 18304495
nsv573841 CNV loss 21841781
nsv514823 CNV gain 21397061
nsv509641 CNV insertion 20534489
nsv482951 CNV loss 15286789
nsv471120 CNV gain 18288195
nsv471119 CNV loss 18288195
nsv457626 CNV loss 19166990
nsv428331 CNV gain+loss 18775914
nsv1934 CNV deletion 18451855
nsv1067164 CNV gain+loss 25217958
nsv1064351 CNV gain+loss 25217958
nsv1062080 CNV loss 25217958
nsv1059965 CNV gain 25217958
esv3639612 CNV gain 21293372
esv3639611 CNV loss 21293372
esv3639610 CNV gain 21293372
esv3639609 CNV loss 21293372
esv3639607 CNV gain 21293372
esv3639606 CNV gain 21293372
esv3553924 CNV deletion 23714750
esv28486 CNV loss 19812545
esv2660381 CNV deletion 23128226
esv2550224 CNV deletion 19546169
esv1938258 CNV deletion 18987734
dgv3067n100 CNV gain 25217958

Variation tolerance for PRDM7 Gene

Residual Variation Intolerance Score: 98.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 13.05; 95.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PRDM7 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PRDM7 Gene

Disorders for PRDM7 Gene

Additional Disease Information for PRDM7

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for PRDM7 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PRDM7 Gene

Publications for PRDM7 Gene

  1. Family expansion and gene rearrangements contributed to the functional specialization of PRDM genes in vertebrates. (PMID: 17916234) Fumasoni I … Ciccarelli FD (BMC evolutionary biology 2007) 2 3 4 58
  2. PR Domain-containing Protein 7 (PRDM7) Is a Histone 3 Lysine 4 Trimethyltransferase. (PMID: 27129774) Blazer LL … Vedadi M (The Journal of biological chemistry 2016) 2 3 58
  3. An unappreciated role for RNA surveillance. (PMID: 14759258) Hillman RT … Brenner SE (Genome biology 2004) 3 4 58
  4. The yin-yang of PR-domain family genes in tumorigenesis. (PMID: 10668202) Jiang GL … Huang S (Histology and histopathology 2000) 3 4 58
  5. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T … Vidal M (Cell 2014) 3 58

Products for PRDM7 Gene

Sources for PRDM7 Gene

Loading form....