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Aliases for SPDEF Gene

Aliases for SPDEF Gene

  • SAM Pointed Domain Containing ETS Transcription Factor 2 3 5
  • Prostate Epithelium-Specific Ets Transcription Factor 3 4
  • Prostate-Derived Ets Factor 3 4
  • Prostate-Specific Ets 3 4
  • PDEF 3 4
  • BA375E1.3 3
  • PSE 4

External Ids for SPDEF Gene

Previous GeneCards Identifiers for SPDEF Gene

  • GC06M034552
  • GC06M034613
  • GC06M034505
  • GC06M034228
  • GC06M034625
  • GC06M035571

Summaries for SPDEF Gene

Entrez Gene Summary for SPDEF Gene

  • The protein encoded by this gene belongs to the ETS family of transcription factors. It is highly expressed in the prostate epithelial cells, and functions as an androgen-independent transactivator of prostate-specific antigen (PSA) promoter. Higher expression of this protein has also been reported in brain, breast, lung and ovarian tumors, compared to the corresponding normal tissues, and it shows better tumor-association than other cancer-associated molecules, making it a more suitable target for developing specific cancer therapies. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2011]

GeneCards Summary for SPDEF Gene

SPDEF (SAM Pointed Domain Containing ETS Transcription Factor) is a Protein Coding gene. Diseases associated with SPDEF include prostate cancer. Among its related pathways are Regulation of Androgen receptor activity. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and RNA polymerase II transcription factor activity, sequence-specific DNA binding. An important paralog of this gene is ELF4.

UniProtKB/Swiss-Prot for SPDEF Gene

  • May function as an androgen-independent transactivator of the prostate-specific antigen (PSA) promoter. Binds to 5-GGAT-3 DNA sequences. May play a role in the regulation of the prostate gland and/or prostate cancer development. Acts as a transcriptional activator for SERPINB5 promoter.

Gene Wiki entry for SPDEF Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SPDEF Gene

Genomics for SPDEF Gene

Regulatory Elements for SPDEF Gene

Genomic Location for SPDEF Gene

Chromosome:
6
Start:
34,537,802 bp from pter
End:
34,556,333 bp from pter
Size:
18,532 bases
Orientation:
Minus strand

Genomic View for SPDEF Gene

Genes around SPDEF on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SPDEF Gene

Proteins for SPDEF Gene

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

    Protein Symbol:
    O95238-SPDEF_HUMAN
    Recommended name:
    SAM pointed domain-containing Ets transcription factor
    Protein Accession:
    O95238
    Secondary Accessions:
    • B4DWH8
    • F5H778

    Protein attributes for SPDEF Gene

    Size:
    335 amino acids
    Molecular mass:
    37518 Da
    Quaternary structure:
    • Interacts with the DNA-binding domain of the androgen receptor. Interacts with NKX3-1.

    Three dimensional structures from OCA and Proteopedia for SPDEF Gene

    Alternative splice isoforms for SPDEF Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SPDEF Gene

Proteomics data for SPDEF Gene at MOPED

Post-translational modifications for SPDEF Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SPDEF Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SPDEF Gene

Domains & Families for SPDEF Gene

Gene Families for SPDEF Gene

Protein Domains for SPDEF Gene

Suggested Antigen Peptide Sequences for SPDEF Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O95238

UniProtKB/Swiss-Prot:

SPDEF_HUMAN :
  • Contains 1 ETS DNA-binding domain.
  • Belongs to the ETS family.
Domain:
  • Contains 1 ETS DNA-binding domain.
  • Contains 1 PNT (pointed) domain.
Family:
  • Belongs to the ETS family.
genes like me logo Genes that share domains with SPDEF: view

Function for SPDEF Gene

Molecular function for SPDEF Gene

UniProtKB/Swiss-Prot Function:
May function as an androgen-independent transactivator of the prostate-specific antigen (PSA) promoter. Binds to 5-GGAT-3 DNA sequences. May play a role in the regulation of the prostate gland and/or prostate cancer development. Acts as a transcriptional activator for SERPINB5 promoter.
genes like me logo Genes that share phenotypes with SPDEF: view

Animal Models for SPDEF Gene

MGI Knock Outs for SPDEF:

Animal Model Products

CRISPR Products

miRNA for SPDEF Gene

Targeted motifs for SPDEF Gene
HOMER Transcription Factor Regulatory Elements motif SPDEF
  • Consensus sequence: ACATCCTGGT Submotif: canonical Cell Type: VCaP GEO ID: SRA014231

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology and Transcription Factor Targets for SPDEF Gene

Localization for SPDEF Gene

Subcellular locations from UniProtKB/Swiss-Prot for SPDEF Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SPDEF Gene COMPARTMENTS Subcellular localization image for SPDEF gene
Compartment Confidence
nucleus 5
extracellular 2

No data available for Gene Ontology (GO) - Cellular Components for SPDEF Gene

Pathways & Interactions for SPDEF Gene

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

Pathways by source for SPDEF Gene

1 BioSystems pathway for SPDEF Gene

Gene Ontology (GO) - Biological Process for SPDEF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA 21656828
GO:0007275 multicellular organism development TAS 10625666
GO:0010454 negative regulation of cell fate commitment IEA --
GO:0010455 positive regulation of cell fate commitment IEA --
GO:0030154 cell differentiation IBA --
genes like me logo Genes that share ontologies with SPDEF: view

No data available for SIGNOR curated interactions for SPDEF Gene

Drugs & Compounds for SPDEF Gene

(5) Drugs for SPDEF Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with SPDEF: view

Transcripts for SPDEF Gene

Unigene Clusters for SPDEF Gene

SAM pointed domain containing ets transcription factor:
Representative Sequences:

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

No ASD Table

Relevant External Links for SPDEF Gene

GeneLoc Exon Structure for
SPDEF
ECgene alternative splicing isoforms for
SPDEF

Expression for SPDEF Gene

mRNA expression in normal human tissues for SPDEF Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Prostate (x17.7), Minor Salivary Gland (x11.5), Breast - Mammary Tissue (x4.6), Stomach (x4.5), and Colon - Transverse (x4.3).

Protein differential expression in normal tissues from HIPED for SPDEF Gene

This gene is overexpressed in Placenta (69.0).

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



SOURCE GeneReport for Unigene cluster for SPDEF Gene Hs.485158

mRNA Expression by UniProt/SwissProt for SPDEF Gene

O95238-SPDEF_HUMAN
Tissue specificity: Expressed in a very restricted set of primarily hormone-regulated epithelial tissues with particularly high expression in the prostate gland. Significantly lower expression is seen in other hormone regulated tissues such as mammary gland, salivary gland, and ovary. Expressed in prostate carcinoma cells.
genes like me logo Genes that share expression patterns with SPDEF: view

Protein tissue co-expression partners for SPDEF Gene

Primer Products

In Situ Assay Products

Orthologs for SPDEF Gene

This gene was present in the common ancestor of animals.

Orthologs for SPDEF Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SPDEF 35
  • 89.85 (n)
  • 92.24 (a)
SPDEF 36
  • 92 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SPDEF 35
  • 91.24 (n)
  • 94.03 (a)
SPDEF 36
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Spdef 35
  • 82.77 (n)
  • 88.31 (a)
Spdef 16
Spdef 36
  • 88 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SPDEF 35
  • 99.4 (n)
  • 98.81 (a)
SPDEF 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Spdef 35
  • 84.21 (n)
  • 89.54 (a)
oppossum
(Monodelphis domestica)
Mammalia SPDEF 36
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SPDEF 36
  • 79 (a)
OneToOne
chicken
(Gallus gallus)
Aves SPDEF 35
  • 76.87 (n)
  • 78.83 (a)
SPDEF 36
  • 80 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SPDEF 36
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia spdef 35
  • 65.71 (n)
  • 72.2 (a)
Str.12237 35
zebrafish
(Danio rerio)
Actinopterygii LOC100003543 35
  • 68.76 (n)
  • 75.65 (a)
SPDEF 36
  • 66 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Ets98B 36
  • 29 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 15 (a)
OneToOne
Species with no ortholog for SPDEF:
  • 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 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 SPDEF Gene

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

Paralogs for SPDEF Gene

Paralogs for SPDEF Gene

(1) SIMAP similar genes for SPDEF Gene using alignment to 1 proteins:

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

Variants for SPDEF Gene

Sequence variations from dbSNP and Humsavar for SPDEF Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs2233639 - 34,544,287(-) TGTCC(A/G)CCTTC reference, missense
rs8171 -- 34,537,963(-) GGCAG(C/T)GACTC utr-variant-3-prime
rs15482 -- 34,537,842(-) CCAGG(A/G)GTGCC utr-variant-3-prime
rs15483 -- 34,537,852(-) AGTTG(A/G)GCAGC utr-variant-3-prime
rs707965 -- 34,537,901(+) GTGCA(A/G)AATGG utr-variant-3-prime

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

Variant ID Type Subtype PubMed ID
dgv1938e1 CNV Complex 17122850
dgv6831n71 CNV Gain 21882294
nsv885786 CNV Loss 21882294
dgv6832n71 CNV Gain 21882294
dgv6833n71 CNV Loss 21882294
nsv516578 CNV Loss 19592680
nsv885792 CNV Gain 21882294

Variation tolerance for SPDEF Gene

Residual Variation Intolerance Score: 91% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.59; 72.37% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SPDEF Gene

HapMap Linkage Disequilibrium report
SPDEF

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

Disorders for SPDEF Gene

MalaCards: The human disease database

(1) MalaCards diseases for SPDEF Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
prostate cancer
  • prostate cancer, hereditary, 5
- elite association - COSMIC cancer census association via MalaCards
Search SPDEF in MalaCards View complete list of genes associated with diseases

Relevant External Links for SPDEF

Genetic Association Database (GAD)
SPDEF
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SPDEF
genes like me logo Genes that share disorders with SPDEF: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SPDEF Gene

Publications for SPDEF Gene

  1. PDEF, a novel prostate epithelium-specific ets transcription factor, interacts with the androgen receptor and activates prostate-specific antigen gene expression. (PMID: 10625666) Oettgen P. … Libermann T.A. (J. Biol. Chem. 2000) 2 3 4 23 67
  2. SAM pointed domain ETS factor (SPDEF) regulates terminal differentiation and maturation of intestinal goblet cells. (PMID: 19786015) Noah T.K. … Shroyer N.F. (Exp. Cell Res. 2010) 3 23
  3. A small subgroup of operable breast cancer patients with poor prognosis identified by quantitative real-time RT-PCR detection of mammaglobin A and trefoil factor 1 mRNA expression in bone marrow. (PMID: 18846421) Tjensvoll K. … NordgAYrd O. (Breast Cancer Res. Treat. 2009) 3 23
  4. Sam-pointed domain containing Ets transcription factor in luminal breast cancer pathogenesis. (PMID: 19505923) Sood A.K. … Geradts J. (Cancer Epidemiol. Biomarkers Prev. 2009) 3 23
  5. PDEF is a negative regulator of colon cancer cell growth and migration. (PMID: 19830706) Moussa O. … Watson D.K. (J. Cell. Biochem. 2009) 3 23

Products for SPDEF Gene

Sources for SPDEF Gene

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