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Aliases for PRDM11 Gene

Aliases for PRDM11 Gene

  • PR/SET Domain 11 2 3 5
  • PR-Domain Containing Protein 11 2 3
  • PR Domain Containing 11 2 3
  • PR Domain 11 2 3
  • PFM8 3 4
  • PR Domain-Containing Protein 11 3
  • EC 2.1.1.- 4

External Ids for PRDM11 Gene

Previous GeneCards Identifiers for PRDM11 Gene

  • GC11P046892
  • GC11M045834
  • GC11P045147
  • GC11P045079
  • GC11P044914

Summaries for PRDM11 Gene

GeneCards Summary for PRDM11 Gene

PRDM11 (PR/SET Domain 11) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and methyltransferase activity. An important paralog of this gene is PRDM7.

UniProtKB/Swiss-Prot for PRDM11 Gene

  • May be involved in transcription regulation.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRDM11 Gene

Genomics for PRDM11 Gene

Regulatory Elements for PRDM11 Gene

Enhancers for PRDM11 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
GH11G045332 1.5 Ensembl ENCODE dbSUPER 18.9 +239.5 239462 2.0 ATF1 FOXA2 YY1 KDM4B SP3 YY2 NFYC ZNF518A MEF2D SMARCA4 PRDM11 SYT13 ENSG00000254497 CHST1 LOC101928812
GH11G045025 1.5 FANTOM5 Ensembl ENCODE dbSUPER 11.9 -67.8 -67830 2.9 BCOR ZMYM3 MAX CEBPG FOSL1 GATA2 ADNP FOS SRF RFX1 PRDM11 TP53I11 TSPAN18 LOC105376650
GH11G044942 1.2 Ensembl ENCODE dbSUPER 11.6 -150.7 -150744 1.7 TSC22D4 MAX NFXL1 ZIC2 RELA ZNF664 ZFHX2 EGR2 ZNF263 BHLHE40 PRDM11 TP53I11 GC11P044930
GH11G044939 1.1 Ensembl ENCODE dbSUPER 12.3 -154.2 -154247 1.0 CTCF ATF1 JUND ATF2 CREM EZH2 PRDM11 GC11P044930 TP53I11
GH11G045021 1.1 Ensembl ENCODE dbSUPER 11.7 -71.9 -71925 1.4 BCOR HDAC2 SMARCA4 ZMYM3 KDM1A PRDM10 RBBP5 PRDM11 TP53I11 LOC105376650
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PRDM11 on UCSC Golden Path with GeneCards custom track

Genomic Location for PRDM11 Gene

Chromosome:
11
Start:
45,094,013 bp from pter
End:
45,235,124 bp from pter
Size:
141,112 bases
Orientation:
Plus strand

Genomic View for PRDM11 Gene

Genes around PRDM11 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PRDM11 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PRDM11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRDM11 Gene

Proteins for PRDM11 Gene

  • Protein details for PRDM11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NQV5-PRD11_HUMAN
    Recommended name:
    PR domain-containing protein 11
    Protein Accession:
    Q9NQV5
    Secondary Accessions:
    • Q8N9F1

    Protein attributes for PRDM11 Gene

    Size:
    511 amino acids
    Molecular mass:
    57863 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for PRDM11 Gene

    Alternative splice isoforms for PRDM11 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PRDM11 Gene

Post-translational modifications for PRDM11 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for PRDM11 Gene

Domains & Families for PRDM11 Gene

Gene Families for PRDM11 Gene

Protein Domains for PRDM11 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PRDM11 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NQV5

UniProtKB/Swiss-Prot:

PRD11_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 PRDM11: view

Function for PRDM11 Gene

Molecular function for PRDM11 Gene

UniProtKB/Swiss-Prot Function:
May be involved in transcription regulation.

Enzyme Numbers (IUBMB) for PRDM11 Gene

Gene Ontology (GO) - Molecular Function for PRDM11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008168 methyltransferase activity IEA --
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with PRDM11: view
genes like me logo Genes that share phenotypes with PRDM11: view

Animal Model Products

CRISPR Products

miRNA for PRDM11 Gene

miRTarBase miRNAs that target PRDM11

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PRDM11 Gene

Localization for PRDM11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PRDM11 Gene

Nucleus. Cytoplasm.

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 PRDM11 gene
Compartment Confidence
nucleus 5
cytosol 2
extracellular 1

Gene Ontology (GO) - Cellular Components for PRDM11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with PRDM11: view

Pathways & Interactions for PRDM11 Gene

SuperPathways for PRDM11 Gene

No Data Available

Interacting Proteins for PRDM11 Gene

Selected Interacting proteins: Q9NQV5-PRD11_HUMAN for PRDM11 Gene via IID

Gene Ontology (GO) - Biological Process for PRDM11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0032259 methylation IEA --
genes like me logo Genes that share ontologies with PRDM11: view

No data available for Pathways by source and SIGNOR curated interactions for PRDM11 Gene

Drugs & Compounds for PRDM11 Gene

No Compound Related Data Available

Transcripts for PRDM11 Gene

Unigene Clusters for PRDM11 Gene

PR domain containing 11:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for PRDM11 Gene

No ASD Table

Relevant External Links for PRDM11 Gene

GeneLoc Exon Structure for
PRDM11
ECgene alternative splicing isoforms for
PRDM11

Expression for PRDM11 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PRDM11 Gene

Protein differential expression in normal tissues from HIPED for PRDM11 Gene

This gene is overexpressed in Fetal gut (67.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PRDM11 Gene



Protein tissue co-expression partners for PRDM11 Gene

NURSA nuclear receptor signaling pathways regulating expression of PRDM11 Gene:

PRDM11

SOURCE GeneReport for Unigene cluster for PRDM11 Gene:

Hs.178715

mRNA Expression by UniProt/SwissProt for PRDM11 Gene:

Q9NQV5-PRD11_HUMAN
Tissue specificity: Highly expressed in lung, including bronchial epithelial cells and airway smooth muscle cells, as well as in peripheral blood mononuclear cells. In tonsils, expressed in B-cell types, including naive B-cells, centroblasts, centrocytes and memory B-cells (at protein level). In benign hyperplastic lymph nodes, expressed in germinal center cells in both the dark and light zones, as well as in scattered cells in the mantle zone and the interfollicular area (at protein level).

Evidence on tissue expression from TISSUES for PRDM11 Gene

  • Nervous system(4.3)
genes like me logo Genes that share expression patterns with PRDM11: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for PRDM11 Gene

Orthologs for PRDM11 Gene

This gene was present in the common ancestor of animals.

Orthologs for PRDM11 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PRDM11 34 35
  • 99.42 (n)
dog
(Canis familiaris)
Mammalia PRDM11 34
  • 91.39 (n)
cow
(Bos Taurus)
Mammalia PRDM11 34 35
  • 91.14 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PRDM11 35
  • 89 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Prdm11 34
  • 87.63 (n)
mouse
(Mus musculus)
Mammalia Prdm11 34 16 35
  • 86.5 (n)
oppossum
(Monodelphis domestica)
Mammalia PRDM11 35
  • 31 (a)
OneToOne
chicken
(Gallus gallus)
Aves PRDM11 34 35
  • 78.26 (n)
lizard
(Anolis carolinensis)
Reptilia PRDM11 35
  • 62 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia prdm11 34
  • 73.3 (n)
zebrafish
(Danio rerio)
Actinopterygii prdm11 34 35
  • 65.04 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG43347 35
  • 2 (a)
OneToMany
Species where no ortholog for PRDM11 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)
  • 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 PRDM11 Gene

ENSEMBL:
Gene Tree for PRDM11 (if available)
TreeFam:
Gene Tree for PRDM11 (if available)

Paralogs for PRDM11 Gene

Paralogs for PRDM11 Gene

genes like me logo Genes that share paralogs with PRDM11: view

Variants for PRDM11 Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for PRDM11 Gene

PRD11_HUMAN-Q9NQV5
A genome-wide association analysis shows PRDM11 association with forced vital capacity (FVC), a spirometric measure of pulmonary function, that reflects lung volume and is used to diagnose and monitor lung diseases.

Sequence variations from dbSNP and Humsavar for PRDM11 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs139870847 A patient with diffuse large B-cell lymphoma 45,183,037(+) TAAAC(A/G)AGGTC nc-transcript-variant, upstream-variant-2KB, reference, missense, utr-variant-5-prime
rs35090414 A patient with diffuse large B-cell lymphoma 45,224,227(-) TGCAA(A/C/T)CTCTT intron-variant, nc-transcript-variant, reference, synonymous-codon, missense
rs1000004841 -- 45,145,279(+) TCCAA(A/G)AAGCT intron-variant, nc-transcript-variant, upstream-variant-2KB
rs1000044787 -- 45,162,821(+) CACCA(A/T)GCCTG intron-variant
rs1000045409 -- 45,166,677(+) GAAGA(A/G/T)TGAGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PRDM11 Gene

Variant ID Type Subtype PubMed ID
dgv137e201 CNV deletion 23290073
dgv631n106 CNV deletion 24896259
esv1665387 CNV insertion 17803354
esv1954118 CNV deletion 18987734
esv2676978 CNV deletion 23128226
esv2744423 CNV deletion 23290073
esv2744424 CNV deletion 23290073
esv2744425 CNV deletion 23290073
esv2744426 CNV deletion 23290073
esv2744427 CNV deletion 23290073
esv2744428 CNV deletion 23290073
esv3547690 CNV deletion 23714750
esv3626171 CNV loss 21293372
nsv1069578 CNV deletion 25765185
nsv1070447 CNV deletion 25765185
nsv1120653 CNV deletion 24896259
nsv1131025 CNV deletion 24896259
nsv513314 CNV insertion 21212237
nsv523057 CNV loss 19592680
nsv825852 CNV gain 20364138
nsv825854 CNV gain 20364138
nsv825855 CNV gain 20364138
nsv951607 CNV duplication 24416366

Variation tolerance for PRDM11 Gene

Residual Variation Intolerance Score: 30.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.90; 59.29% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PRDM11 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PRDM11

Disorders for PRDM11 Gene

Relevant External Links for PRDM11

Genetic Association Database (GAD)
PRDM11
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PRDM11

No disorders were found for PRDM11 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PRDM11 Gene

Publications for PRDM11 Gene

  1. Loss of PRDM11 promotes MYC-driven lymphomagenesis. (PMID: 25499759) Fog C.K. … Lund A.H. (Blood 2015) 3 4 64
  2. Genome-wide association analysis identifies six new loci associated with forced vital capacity. (PMID: 24929828) Loth D.W. … London S.J. (Nat. Genet. 2014) 3 4 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. Uncovering global SUMOylation signaling networks in a site-specific manner. (PMID: 25218447) Hendriks I.A. … Vertegaal A.C. (Nat. Struct. Mol. Biol. 2014) 4 64
  5. A meta-analysis of thyroid-related traits reveals novel loci and gender-specific differences in the regulation of thyroid function. (PMID: 23408906) Porcu E. … Naitza S. (PLoS Genet. 2013) 3 64

Products for PRDM11 Gene

Sources for PRDM11 Gene

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