Aliases &
Descriptions
for SPDEF gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc
, and/or 7Ensembl,
8miRBase)
About This Section
|
| Aliases & Descriptions |
|---|
| SAM pointed domain containing ets transcription factor1 2 | | Prostate-specific Ets2 3 | | PDEF1 2 3 5 | | SAM pointed domain-containing Ets transcription factor2 | | bA375E1.31 2 | | RP11-375E1__A.32 | | Prostate-derived Ets factor2 3 | | PSE3 | | Prostate epithelium-specific Ets transcription factor2 3 | | |
Export aliases for SPDEF gene to outside databasesPrevious GC identifers: GC06M034552 GC06M034613 GC06M034505 |
Summaries
for SPDEF gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for SPDEF:
PDEF is an ETS transcription factor expressed in prostate epithelial cells. It acts as an androgen-independenttransactivator of PSA (MIM 176820) expression.(supplied by OMIM)
UniProtKB/Swiss-Prot: SPDEF_HUMAN, O95238Function: May function as an androgen-independent transactivator of the prostate-specific antigen (PSA) promoter. Bindsto 5'-GGAT-3' DNA sequences. May play a role in the regulation of the prostate gland and/or prostate cancerdevelopment. Acts as a transcriptional activator for SERPINB5 promoter
Gene Wiki entry for SPDEF |
Genomic Views
for SPDEF gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 60),
Regulatory elements and Epigenetics data according to
Qiagen and/or
SABiosciences)
About This Section
|
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SPDEF gene promoter:
NRSF form 2 NRSF form 1 FOXC1 C/EBPalpha HNF-4alpha2 COUP-TF1 SREBP-1a SREBP-1b SREBP-1c Nkx3-1 v1
Other transcription factors
Search SABiosciences Chromatin IP Primers for SPDEF
Epigenetics:
|  | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays  |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 6p21.3 Ensembl cytogenetic band: 6p21.31 HGNC cytogenetic band: 6p21.3SPDEF Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc gene densities for chromosome 6 GeneLoc Exon Structure GeneLoc location for GC06M034228: view genomic region
(about GC identifiers)
Start:
|
34,228,204 bp from pter |
End:
|
34,246,713 bp from pter |
Size:
|
18,510 bases |
Orientation:
|
minus strand |
1 alternative location:
| Chr6- 34,505,579-34,524,091 |
RefSeq DNA sequence:- NC_000006.11 NT_007592.15
|
Proteins
for SPDEF gene
(According to
1UniProtKB,
neXtProt,
and/or Ensembl,
Phosphorylation sites according to 2Phosphosite,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
Millipore,
Sigma-Aldrich,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological, and/or
ProSpec,
Biochemical Assays by
Millipore,
Sigma-Aldrich,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Dec 2010 and
Entrez Gene,
Antibodies by
Millipore,
Sigma-Aldrich,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals, and/or
Epitomics)
About This Section
|
UniProtKB/Swiss-Prot: SPDEF_HUMAN, O95238 (See
protein sequence)Recommended Name: SAM pointed domain-containing Ets transcription factor Size: 335 amino acids; 37518 Da
Subunit: Interacts with the DNA-binding domain of the androgen receptor. Interacts with NKX3-1
Subcellular location: Nucleus (Probable)
PDB structure from  and Proteopedia  :1YO5 (3D)
2DKX (3D)
Explore the universe of human proteins at neXtProt for SPDEF: NX_O95238
REFSEQ proteins: NP_036523.1
ENSEMBL proteins: ENSP00000363149
Human Recombinant Proteins
1 Gene Ontology (GO) cellular component term (GO ID links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005634 | nucleus |
IEA | -- |
About this table
SPDEF for ontologies About GeneDecksing
Antibodies for SPDEF:
Assays for SPDEF: |
Protein
Domains/
Families
for SPDEF gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SPDEF for domains About GeneDecksing
5 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry O95238ProtoNet protein and cluster: O95238 1 Blocks protein family: IPB003118 Sterile alpha motif (SAM)/Pointed domain
UniProtKB/Swiss-Prot: SPDEF_HUMAN, O95238Similarity: Belongs to the ETS familySimilarity: Contains 1 ETS DNA-binding domainSimilarity: Contains 1 PNT (pointed) domain |
Gene Function
for SPDEF gene
(According to UniProtKB,
IUBMB,and/or
Genatlas, Animal models from MGI Dec 24 2010,
shRNA from
OriGene,
Sigma-Aldrich,
RNAi from
Millipore,
siRNAs from
Sigma-Aldrich,
OriGene,
Qiagen,
Super-pooled esiRNAs from Sigma-Aldrich,
microRNA from Sigma-Aldrich,
Qiagen,
SABiosciences,
Clones from Millipore,
Sigma-Aldrich,
OriGene,
GenScript,
Sino Biological,
Cell Lines from GenScript,
Ontologies according to Gene Ontology Consortium 01 Dec 2010 via
Entrez Gene.)
About This Section
|
UniProtKB/Swiss-Prot: SPDEF_HUMAN, O95238Function: May function as an androgen-independent transactivator of the prostate-specific antigen (PSA) promoter. Bindsto 5'-GGAT-3' DNA sequences. May play a role in the regulation of the prostate gland and/or prostate cancerdevelopment. Acts as a transcriptional activator for SERPINB5 promoter
3 Gene Ontology (GO) molecular function terms (GO ID links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0003700 | sequence-specific DNA binding transcription factor activity |
IEA | -- | | GO:0005515 | protein binding |
IEA | -- | | GO:0043565 | sequence-specific DNA binding |
IEA | -- |
About this table
SPDEF for ontologies About GeneDecksing
Animal Models: 3 MGI mutant phenotypes (inferred from 2 alleles ) (MGI details for Spdef):
SPDEF for phenotypes About GeneDecksing
|
Pathways & Interactions
for SPDEF gene
(Pathways according to
Millipore,
Cell Signaling Technology,
Sigma-Aldrich,
KEGG
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
PCR Arrays from
SABiosciences,
Proteins Network according to
SABiosciences,
Sigma-Aldrich,
Interactions according to 1UniProtKB,
2MINT, and/or
3STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Dec 2010 via
Entrez Gene).
About This Section
|
SABiosciences Custom Pathway-Focused PCR Arrays for SPDEF
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SPDEF
1 Interacting protein for SPDEF (ENSP000003631493) via UniProtKB, MINT, and/or STRINGAbout this table
2 Gene Ontology (GO) biological process terms (GO ID links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006355 | regulation of transcription, DNA-dependent |
IEA | -- | | GO:0007275 | multicellular organismal development |
TAS | 10625666 |
About this table
SPDEF for ontologies About GeneDecksing
|
Drugs & Compounds
for SPDEF gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
Sigma-Aldrich, Tocris Bioscience, and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB)
About This Section
|
SPDEF for compounds About GeneDecksing
 Browse Tocris compounds for SPDEF
5  Novoseek chemical compound relationships for SPDEF gene
About this table
|
Transcripts
for SPDEF gene(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 228 Homo sapiens; Dec 8 2010) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
non coding RNAs according to
RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
Millipore,
siRNAs from
Sigma-Aldrich,
OriGene,
Qiagen,
Super-pooled esiRNAs from Sigma-Aldrich,
shRNA from
Sigma-Aldrich,
OriGene,
microRNA from Sigma-Aldrich,
Qiagen,
SABiosciences,
Tagged/untagged cDNA clones from
OriGene,
Sigma-Aldrich,
GenScript,
Primers from
OriGene and/or
SABiosciences)
About This Section
|
REFSEQ mRNAs for SPDEF gene: NM_012391.1 Additional cDNA sequence: AB031549.1 AF071538.1 AK301543.1 BC021299.2 9 DOTS entries: DT.95345293 DT.215487 DT.121359044 DT.92423798 DT.100009886 DT.95367968 DT.87079326 DT.121358603 DT.92423797 24/286 AceView cDNA sequences (see all 286): BI770453 CD624498 BI772270 BQ276248 BF003063 BM757166 NM_012391 AW298436 AF071538 BC021299 CB049255 BG179568 CF146817 AB031549 BQ689034 BM006343 BM853102 BF589055 CA489702 AI745526 BM798283 BE563288 AI687669 AA662521
 highest scoring ESTs for SPDEF:AB031549 AF071538 BC021299 BE563288 BE871340 BG328411 BI770453 BI772270 BM006343 BM757166 Unigene Cluster for SPDEF: SAM pointed domain containing ets transcription factor Hs.485158 [show with all ESTs]Unigene Representative Sequence: BC021299
GeneLoc Exon Structure
1 Ensembl transcript including schematic representation, and UCSC links where relevant: ENST00000374037(uc003ojq.1 uc011dsq.1)
|
Expression
for SPDEF gene
(Experimental results according to
1GeneNote
and GNF BioGPS,
probe sets-to-genes annotations according to
2GeneAnnot ,
3GeneTide ,
Sets of similar genes according to GeneDecks,
Electronic Northern calculations according to data from
UniGene (Build 228 Homo sapiens),
SAGE tags according to
CGAP,
plus additional links to
SOURCE, and/or
GNF
BioGPS, and/or
EXPOLDB, and/or
UniProtKB,
Primers from
OriGene and/or
SABiosciences
)
About This Section
| SPDEF expression in normal and diseased human tissues
1 / 2 / 3 6 probe-sets matching SPDEF gene
Affymetrix
probe-set |
Array |
GeneAnnot data |
GeneNote data |
GeneTide data |
| # genes |
Sensitivity |
Specificity |
Correlation |
Length |
Gb_Accession |
Consensus |
Uniqueness |
Score |
Rank |
| 220192_x_at2, 3
|
U133-A |
2 |
1.00 |
0.95 |
-- |
-- |
NM_012391 |
0.60 |
1.00 |
0.82 |
1 |
| 213441_x_at2, 3
|
U133-A |
1 |
0.82 |
1.00 |
-- |
-- |
AI745526 |
0.40 |
1.00 |
0.76 |
1 |
| 214404_x_at2, 3
|
U133-A |
1 |
0.55 |
1.00 |
-- |
-- |
AI435670 |
0.20 |
1.00 |
0.72 |
1 |
| 220192_x_at2
|
U133Plus2 |
2 |
1.00 |
0.95 |
-- |
-- |
-- |
-- |
-- |
-- |
-- |
| 213441_x_at2
|
U133Plus2 |
1 |
0.82 |
1.00 |
-- |
-- |
-- |
-- |
-- |
-- |
-- |
| 214404_x_at2
|
U133Plus2 |
1 |
0.55 |
1.00 |
-- |
-- |
-- |
-- |
-- |
-- |
-- |
About this table
Data from
Genenote
(Publications) and GNF BioGPS
About these images
About these images
CGAP SAGE TAG: GTGCAGGGAG
SOURCE GeneReport for Unigene cluster: Hs.485158
Expression variation in blood from EXPOLDB for SPDEF UniProtKB/Swiss-Prot: SPDEF_HUMAN, O95238Tissue specificity: Expressed in a very restricted set of primarily hormone-regulated epithelial tissues withparticularly high expression in the prostate gland. Significantly lower expression is seen in other hormone regulatedtissues such as mammary gland, salivary gland, and ovary. Expressed in prostate carcinoma cells
SABiosciences Custom PCR Arrays for SPDEF
|
Orthologs
for SPDEF gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
and/or
5MGI Dec 24 2010,
with possible further links to
Flybase
and/or
WormBase,
Gene Trees according to Ensembl)
About This Section
|
Orthologs for SPDEF gene from 5/8 species (see all 8)
About this table Species with no ortholog for SPDEF
ENSEMBL Gene Tree for SPDEF (if available) |
Paralogs
for SPDEF gene(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section
| Paralogs for SPDEF gene
- ELK42 ETV12 ETV52 GABPA2 ELK12 ETV42 ETV22 ELK32
SPDEF for paralogs About GeneDecksing
|
Genomic Variants
for SPDEF gene(SNPs according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE, and
UniProtKB,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Chr 6 pos | Sequence | Recs | AA
Chg | Type | More | Recs | Allele
freq | Pop | Total
sample | More |
|---|
About this tableHapMap Linkage Disequilibrium images for SPDEF (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for SPDEF
1 CNV: 3605 | | QIAGEN SeqTarget long-range PCR primers for resequencing SPDEF |
|
Disorders & Mutations
for SPDEF gene
(in which this Gene is Involved, According to
OMIM, UniProtKB,
Novoseek, PharmGKB,
Genatlas, GeneTests,
Blood group antigen gene mutations by BGMUT,
LSDB, HGMD, GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
SPDEF for disorders About GeneDecksing
OMIM: 608144
5 Novoseek disease relationships for SPDEF gene
| Disease |
-log (P-Val) |
Hits |
PubMed IDs for Articles with Shared Sentences (# sentences) |
| breast cancer |
53 |
31 |
16897429 (6), 17308102 (4), 19505923 (3), 20461080 (2) (see all 11) |
| cancer |
34.6 |
5 |
16897429 (2), 18922924 (1), 15124082 (1) |
| prostate cancer |
34.5 |
10 |
17483333 (4), 10625666 (1), 17521701 (1), 11953821 (1) |
| tumors |
15.2 |
44 |
18567002 (6), 16897429 (6), 17521701 (4), 19505923 (4) (see all 10) |
| metastasis |
7.58 |
1 |
19505923 (1) |
About this table
Export disorders and mutations for SPDEF gene to outside databases
|
Medical News
for SPDEF gene(Possibly Related Articles in
Doctor's Guide)
About This Section
| -- |
Publications
for SPDEF gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6UniProtKB/TrEMBL, and/or
7Novoseek)
About This Section
|
10/54 PubMed articles for SPDEF gene, integrated from 7 sources (see all 54):
(articles sorted by number of sources associating them with SPDEF)- PDEF, a novel prostate epithelium-specific ets transcription factor, interacts with the androgen receptor and activates prostate-specific antigen gene expression. (PubMed id 10625666)1, 2, 3, 7 Oettgen P.... Libermann T.A. (2000)
- NKX-3.1 interacts with prostate-derived Ets factor and regulates the activity of the PSA promoter. (PubMed id 11809674)1, 2, 7 Chen H.... Bieberich C.J. (2002)
- Cloning and expression of the mouse Pse gene encoding a novel Ets family member. (PubMed id 10675039)1, 2, 7 Yamada N.... Nozaki M. (2000)
- Analysis of the 2.0 A crystal structure of the protein-DNA complex of the human PDEF Ets domain bound to the prostate specific antigen regulatory site. (PubMed id 15882048)1, 2 Wang Y....Gulick A.M. (2005)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (2003)
- Electron micrographs in five minutes. (PubMed id 6857767)1, 3 Johannessen J.V. and Finseth I. (1983)
- PDEF is a negative regulator of colon cancer cell gro wth and migration. (PubMed id 19830706)1, 7 Moussa O....Watson D.K. (2009)
- Novel role for PDEF in epithelial cell migration and invasion. (PubMed id 16357167)1, 7 Gunawardane R.N....Brugge J.S. (2005)
- Expression characteristics of prostate-derived Ets fa ctor support a role in breast and prostate cancer progression. (PubMed id 17521701)1, 7 Sood A.K....Geradts J. (2007)
|
External Searches for SPDEF gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SPDEF gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SPDEF gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SPDEF gene(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
|
About This Section
| Patent Information for SPDEF gene:
Search GeneIP for patents involving SPDEF
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SPDEF gene(Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or
Enzo Life Sciences)
About This Section
|
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 |  |  |  | |
| |  | Search Tocris compounds for SPDEF |
| |  |  |  |  | | | | |
 | | | ELISAs and CLIAs for SPDEF |
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