SSX3 Gene

Aliases
for SSX3 gene

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, ¹⁰fRNAdb, ¹²H-InvDB, ¹³NCBI, ¹⁴NONCODE, and/or ¹⁵RNAdb)
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Previous GC identifers: GC0XM047008 GC0XM046466 GC0XM047200 GC0XM047251 GC0XM047962 GC0XM048090 GC0XM045914

Summaries
for SSX3 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Genomic Views
for SSX3 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:

NC_000023.10  NT_079573.5  NC_018934.2  

SwitchGear Promoter luciferase reporter plasmid: SSX3 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SSX3

SSX3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM048205:  view genomic region     (about GC identifiers)

Proteins
for SSX3 gene

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, antibodies-online, and/or GeneTex,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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Explore the universe of human proteins at neXtProt for SSX3: NX_Q99909

Explore proteomics data for SSX3 at MOPED

Post-translational modifications: 

SSX3 Human Recombinant Protein Products:

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	antibodies-online peptides for SSX3

SSX3 Antibody Products:

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SSX3 Assay Products:

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	antibodies-online kits for SSX3 (2 products)

Domains /
Families
for SSX3 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
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ProtoNet protein and cluster: Q99909

Find genes that share domains with SSX3           About GenesLikeMe

Function
for SSX3 gene

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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     Gene Ontology (GO): 1 molecular function term:    About this table

genOway: Develop your customized and physiologically relevant rodent model for SSX3

miRNA Products:		Block miRNA regulation of human, mouse, rat SSX3 using miScript Target Protectors
		3 qRT-PCR Assays for microRNAs that regulate SSX3:
		hsa-miR-199b-3p hsa-miR-199a-3p hsa-miR-3129-5p
		SwitchGear 3'UTR luciferase reporter plasmid: SSX3 3' UTR sequence

Inhib. RNA Products:		OriGene RNAi products in human, mouse, rat for SSX3
		Predesigned siRNA for gene silencing in human, mouse, rat SSX3

Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for SSX3

Clone Products:		OriGene clones in human, mouse for SSX3 (see all 9) OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 2): SSX3 (NM_021014)
		Browse Sino Biological Human cDNA Clones
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for SSX3
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SSX3

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for SSX3
		Browse ESI BIO Cell Lines and PureStem Progenitors for SSX3

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SSX3

Localization
for SSX3 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Subcellular locations from COMPARTMENTS: 

Compartment	Confidence
cytosol	3
nucleus	3
extracellular	1

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Gene Ontology (GO): 2 cellular component terms:    About this table

Pathways & Interactions
for SSX3 gene

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GenesLikeMe, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Gene Ontology (GO): 2 biological process terms:    About this table

Drugs & Compounds
for SSX3 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, Sets of similar genes according to GenesLikeMe)
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Transcripts
for SSX3 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Expression
for SSX3 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GenesLikeMe, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SSX3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: --

About this image

Primer Products:		OriGene qPCR primer pairs and template standards for SSX3 OriGene qSTAR qPCR primer pairs in human, mouse for SSX3
		Pre-validated RT2 qPCR Primer Assay in human, mouse / rat SSX3
		QuantiTect SYBR Green Assays in human, mouse, rat SSX3
		QuantiFast Probe-based Assays in human, mouse, rat SSX3

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SSX3

Orthologs
for SSX3 gene

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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Paralogs
for SSX3 gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
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Paralogs for SSX3 gene

SSX5²  SSX2B²  SSX2²  SSX4²  SSX7²  SSX4B²  SSX1²  

16 SIMAP similar genes for SSX3 using alignment to 2 protein entries:     SSX3_HUMAN (see all proteins):

SSX2B    SS18/SSX2 fusion    SSX10    SSX9    SSX5    SSX7

SSX2    SSX6    SSX4B    SSX1    SSX4    SSX8

SYT-SSX2    SS18/SSX1 fusion    SYT-SSX1    SSX-HSTT

Find genes that share paralogs with SSX3           About GenesLikeMe


2 Pseudogenes.org Pseudogenes for SSX3
PGOHUM00000241317 PGOHUM00000241778

Genomic Variants
for SSX3 gene

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, ⁴UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SSX3 (see all 280)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr X pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs1830632191,2		--	48124949(+)	AGGATC/TGCTTT	1	--	ds5001		0	--	--	--	--
rs1890373981,2		--	48125063(+)	CTCTGA/GAGGCT	1	--	ds5001		0	--	--	--	--
rs78897041,2	C,A	--	48125142(+)	cagccA/Tggaca	1	--	ds5001		0	--	--	--	--
rs1827545611,2		--	48125260(+)	GATGTC/TGCTCC	1	--	ds5001		0	--	--	--	--
rs726190131,2	C	--	48125280(+)	AACAGC/TGCTCA	1	--	ds5001		0	--	--	--	--
rs1455063321,2	C	--	48125362(+)	TTTCCC/TAAAGA	1	--	ds5001		0	--	--	--	--
rs125592411,2	C,H	--	48125463(+)	GACTGA/CTACAG	1	--	ut31 ese3		0	--	--	--	--
rs721726991,2	C	--	48125579(+)	ACTTG-/GTGT     GTGTCTGTGTG	1	--	ut31		0	--	--	--	--
rs718227041,2	C	--	48125586(+)	GTGTG-/TCTGTGT	1	--	ut31		0	--	--	--	--
rs31252151,2	C,H	--	48125587(+)	TGTGTG/CTGTGT	1	--	ut31 ese3		2		NA	4

HapMap Linkage Disequilibrium report for SSX3 (48205863 - 48216142 bp)

Structural Variations
     Database of Genomic Variants (DGV) 6 variations for SSX3:    About this table    

Variant ID	Type	Subtype	PubMed ID
esv2671998	CNV	Deletion	23128226
nsv508769	CNV	Insertion	20534489
esv25781	CNV	Gain	19812545
nsv523595	CNV	Gain	19592680
esv32909	CNV	Gain+Loss	17666407
nsv7441	OTHER	Inversion	18451855

Locus Specific Mutation Databases (LSDB): SSX3

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing SSX3

DNA2.0 Custom Variant and Variant Library Synthesis for SSX3

Disorders / Diseases
for SSX3 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB, Sets of similar genes according to GenesLikeMe)
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2 diseases for SSX3

2 Novoseek inferred disease relationships for SSX3 gene    About this table

Publications
for SSX3 gene

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
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PubMed articles for SSX3 gene, integrated from 10 sources (see all 11): (articles sorted by number of sources associating them with SSX3)

Utopia: connect your pdf to the dynamic world of online information

1. A novel Kruppel-associated box containing the SSX gene (SSX3) on the human X chromosome is not implicated in t(X;18)-positive synovial sarcomas. (PubMed id 8697803)^{1, 2, 3, 9} de Leeuw B.... Geurts van Kessel A. (Cytogenet. Cell Genet. 1996)
2. SSX: a multigene family with several members transcribed in normal testis and human cancer. (PubMed id 9378559)^{1, 2, 3, 9} Gure A.O.... Chen Y.-T. (Int. J. Cancer 1997)
3. The cancer-related protein SSX2 interacts with the human homologue of a Ras-like GTPase interactor, RAB3IP, and a novel nuclear protein, SSX2IP. (PubMed id 12007189)^{1, 2, 9} de Bruijn D.R.H....van Kessel A.G. (Genes Chromosomes Cancer 2002)
4. The DNA sequence of the human X chromosome. (PubMed id 15772651)^{1, 2} Ross M.T.... Bentley D.R. (Nature 2005)
5. 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. (Genome Res. 2004)
6. Heterogeneous expression of the SSX cancer/testis antigens in human melanoma lesions and cell lines. (PubMed id 10749136)^{1, 9} dos Santos N.R.... Geurts van Kessel A. (Cancer Res. 2000)
7. An atlas of combinatorial transcriptional regulation in mouse and man. (PubMed id 20211142)¹ Ravasi T....Hayashizaki Y. (Cell 2010)
8. A multigene predictor of metastatic outcome in early stage hormone receptor-negative and triple-negative breast cancer. (PubMed id 20946665)¹ Yau C....Benz C.C. (Breast Cancer Res. 2010)
9. The SSX gene family: characterization of 9 complete genes. (PubMed id 12216073)¹ Gure A.O.... Chen Y.-T. (Int. J. Cancer 2002)
10. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

External Searches for SSX3 gene

Genome Databases showing SSX3 gene

Other Databases showing SSX3 gene

Specialized Databases showing SSX3 gene

Products
for SSX3 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, GeneTex, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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