Aliases &
Descriptions
for SSX4B gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc
, and/or 7Ensembl,
8miRBase)
About This Section
|
| Aliases & Descriptions |
|---|
| synovial sarcoma, X breakpoint 4B1 2 | | SSX42 | | OTTHUMT000000565101 2 | | protein SSX42 | | Cancer/testis antigen 5.42 3 | | MGC1690162 | | CT5.42 3 | | SSX4A3 | | MGC1690152 | | |
Export aliases for SSX4B gene to outside databasesPrevious GC identifers: GC00U921552 GC0XU900601 GC0XM048146 |
Summaries
for SSX4B 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 SSX4B:
The product of this gene belongs to the family of highly homologous synovial sarcoma X (SSX) breakpoint proteins. Theseproteins may function as transcriptional repressors. They are also capable of eliciting spontaneously humoral andcellular immune responses in cancer patients, and are potentially useful targets in cancer vaccine-basedimmunotherapy. SSX1, SSX2 and SSX4 genes have been involved in the t(X;18) translocation characteristically found inall synovial sarcomas. This translocation results in the fusion of the synovial sarcoma translocation gene onchromosome 18 to one of the SSX genes on chromosome X. Chromosome Xp11 contains a segmental duplication resulting intwo identical copies of synovial sarcoma, X breakpoint 4, SSX4 and SSX4B, in tail-to-tail orientation. This gene,SSX4B, represents the more centromeric copy. Two transcript variants encoding distinct isoforms have been identifiedfor this gene. (provided by RefSeq)
UniProtKB/Swiss-Prot: SSX4_HUMAN, O60224Function: Could act as a modulator of transcription
|
Genomic Views
for SSX4B 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 SSX4B gene promoter:
GATA-1 NF-1 CUTL1 POU2F1 ER-alpha C/EBPbeta HOXA9B Meis-1 HNF-1A RSRFC4
Other transcription factors
Search SABiosciences Chromatin IP Primers for SSX4B
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: Xp11.23 Ensembl cytogenetic band: Xp11.23 HGNC cytogenetic band: Xp11.23SSX4B 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 X GeneLoc Exon Structure GeneLoc location for GC0XM048261: view genomic region
(about GC identifiers)
Start:
|
48,261,524 bp from pter |
End:
|
48,271,344 bp from pter |
Size:
|
9,821 bases |
Orientation:
|
minus strand |
RefSeq DNA sequence:- NC_000023.10 NT_079573.4
|
Proteins
for SSX4B 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)
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|
UniProtKB/Swiss-Prot: SSX4_HUMAN, O60224 (See
protein sequence)Recommended Name: Protein SSX4 Size: 188 amino acids; 21858 Da
Secondary accessions: B2RPE3 Q5JQZ0 Q9UJU9Explore the universe of human proteins at neXtProt for SSX4B: NX_O60224
REFSEQ proteins (2 alternative transcripts):
NP_001030004.1 NP_001035702.1
ENSEMBL proteins: ENSP00000366081 ENSP00000380134
Human Recombinant Proteins
2 Gene Ontology (GO) cellular component terms (GO ID links to tree view): About this table
SSX4B for ontologies About GeneDecksing
Antibodies for SSX4B:
Assays for SSX4B: |
Protein
Domains/
Families
for SSX4B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SSX4B for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry O60224ProtoNet protein and cluster: O60224 1 Blocks protein family: IPB001909 KRAB box
UniProtKB/Swiss-Prot: SSX4_HUMAN, O60224Similarity: Belongs to the SSX familySimilarity: Contains 1 KRAB-related domain |
Gene Function
for SSX4B 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: SSX4_HUMAN, O60224Function: Could act as a modulator of transcription
1 Gene Ontology (GO) molecular function term (GO ID links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0003676 | nucleic acid binding |
IEA | -- |
About this table
SSX4B for ontologies About GeneDecksing
|
Pathways & Interactions
for SSX4B 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 SSX4B
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SSX4B
1 Interacting protein for SSX4B (O602242) via UniProtKB, MINT, and/or STRINGAbout this table
1 Gene Ontology (GO) biological process term (GO ID links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006355 | regulation of transcription, DNA-dependent |
IEA | -- |
About this table
SSX4B for ontologies About GeneDecksing
|
Drugs & Compounds
for SSX4B 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
|
 Browse Tocris compounds for SSX4B
|
Transcripts
for SSX4B 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 SSX4B gene (2 alternative transcripts): NM_001034832.2 NM_001040612.1 2 DOTS entries: DT.40305548 DT.40127997
 highest scoring ESTs for SSX4B:NM_001034832 NM_001040612 Unigene Clusters for SSX4B: Synovial sarcoma, X breakpoint 4B Hs.558402 [show with all ESTs], Hs.648298 Unigene Representative Sequences: NM_005636, NM_001034832
GeneLoc Exon Structure
2 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000376884(uc004djh.1) ENST00000396928(uc004dji.1)
|
Expression
for SSX4B 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
| SSX4B expression in normal and diseased human tissues
1 / 2 / 3 1 probe-set matching SSX4B gene
Affymetrix
probe-set |
Array |
GeneAnnot data |
GeneNote data |
GeneTide data |
| # genes |
Sensitivity |
Specificity |
Correlation |
Length |
Gb_Accession |
Consensus |
Uniqueness |
Score |
Rank |
| 35950_at2, 3
|
U95-A |
11 |
0.81 |
0.14 |
1.00 |
1.00 |
U90841 |
0.20 |
0.04 |
0.14 |
2 |
About this table
SSX4B for expression About GeneDecksing
Data from
Genenote
(Publications) and GNF BioGPS
About these images
About these images
CGAP SAGE TAG: --
SOURCE GeneReport for Unigene clusters: Hs.558402 Hs.648298
SABiosciences Custom PCR Arrays for SSX4B
|
Orthologs
for SSX4B 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
| ENSEMBL Gene Tree for SSX4B (if available) |
Paralogs
for SSX4B gene(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section
| Paralogs for SSX4B gene
- SSX41 2 SSX22 SSX2B2 SSX62 SSX72 SSX12 SSX52 SSX92
- SSX32
SSX4B for paralogs About GeneDecksing
|
Genomic Variants
for SSX4B 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
|
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 7 variations for SSX4B
5 CNVs: 96641 83494 67975 67974 7789
2 Inversions: 37376 37375 |
Disorders & Mutations
for SSX4B gene
(in which this Gene is Involved, According to
OMIM, UniProtKB,
PharmGKB,
Genatlas, GeneTests,
Blood group antigen gene mutations by BGMUT,
LSDB, HGMD, GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
| -- |
Medical News
for SSX4B gene(Possibly Related Articles in
Doctor's Guide)
About This Section
| -- |
Publications
for SSX4B 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
|
10/11 PubMed articles for SSX4B gene, integrated from 7 sources (see all 11):
(articles sorted by number of sources associating them with SSX4B)- The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (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)
- SSX: a multigene family with several members transcribed in normal testis and human cancer. (PubMed id 9378559)1, 2 Gure A.O....Chen Y.T. (1997)
- Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (2005)
- CD4+ T cell responses to SSX-4 in melanoma patients. (PubMed id 15814740)1 Ayyoub M....Valmori D. (2005)
- The SSX gene family: characterization of 9 complete genes. (PubMed id 12216073)1 Gure A.O.... Chen Y.-T. (2002)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- Molecular mechanisms underlying human synovial sarcoma development. (PubMed id 11107170)1 dos Santos N.R....van Kessel A.G. (2001)
- Cloning and characterization of spliced fusion transcript variants of synovial sarcoma: SYT/SSX4, SYT/SSX4v, and SYT/SSX2v. Possible regulatory role of the fusion gene product in wild type SYT expression. (PubMed id 11368913)1 Brodin B.... Larsson O. (2001)
- Expressions of cancer-testis antigens in human hepatocellular carcinomas. (PubMed id 11179834)1 Chen C.H....Sheu J.C. (2001)
|
External Searches for SSX4B gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing SSX4B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SSX4B gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SSX4B 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 SSX4B gene:
Search GeneIP for patents involving SSX4B
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SSX4B 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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