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SSX8 Gene

pseudogene   GIFtS: 31
GCID: GC0XP052670

Synovial Sarcoma, X Breakpoint 8

  See SSX8-related disease
at  

(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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Aliases
Synovial Sarcoma, X Breakpoint 81 2

External Ids:    HGNC: 196541   Entrez Gene: 2806592   Ensembl: ENSG000001579657   OMIM: 3005435   UniProtKB: Q7RTT43   

Export aliases for SSX8 gene to outside databases

Previous GC identifers: GC0XM050364 GC0XP051305 GC0XP051618 GC0XP052535 GC0XP052668 GC0XP049780


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SSX8 Gene:
SSX8 (synovial sarcoma, X breakpoint 8) is a pseudogene. Diseases associated with SSX8 include synovial sarcoma. GO annotations related to this gene include nucleic acid binding.

UniProtKB/Swiss-Prot: SSX8_HUMAN, Q7RTT4
Function: Could act as a modulator of transcription




(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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Regulatory elements:
   Regulatory transcription factor binding sites in the SSX8 gene promoter:
         HOXA9B   ATF-2   FOXD3   HNF-4alpha1   CRE-BP1   ARP-1   Sox9   Meis-1a   Meis-1   
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SSX8


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: Xp11.23   Ensembl cytogenetic band:  Xp11.22   HGNC cytogenetic band: Xp11.23

SSX8 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SSX8 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP052670:  view genomic region     (about GC identifiers)

Start:
52,651,985 bp from pter      End:
52,662,998 bp from pter
Size:
11,014 bases      Orientation:
plus strand

(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, and/or antibodies-online,
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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UniProtKB/Swiss-Prot: SSX8_HUMAN, Q7RTT4 (See protein sequence)
Recommended Name: Protein SSX8  
Size: 187 amino acids; 21859 Da
Sequence caution: Sequence=DAA00375.1; Type=Erroneous gene model prediction;
Secondary accessions: A6NJM6

Explore the universe of human proteins at neXtProt for SSX8: NX_Q7RTT4

Explore proteomics data for SSX8 at MOPED


See SSX8 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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4 InterPro protein domains:
 IPR003655 Krueppel-associated_box-rel
 IPR019041 SSXRD_motif
 IPR028804 SSX
 IPR001909 Krueppel-associated_box

Graphical View of Domain Structure for InterPro Entry Q7RTT4

ProtoNet protein and cluster: Q7RTT4

1 Blocks protein domain: IPB001909 KRAB box

UniProtKB/Swiss-Prot: SSX8_HUMAN, Q7RTT4
Similarity: Belongs to the SSX family
Similarity: Contains 1 KRAB-related domain


Find genes that share domains with SSX8           About GenesLikeMe


(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.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: SSX8_HUMAN, Q7RTT4
Function: Could act as a modulator of transcription

     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003676nucleic acid binding IEA--
     
Find genes that share ontologies with SSX8           About GenesLikeMe


Animal Models:
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus3
cytosol2
golgi apparatus1
peroxisome1
plasma membrane1

Gene Ontology (GO): 1 cellular component term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005634nucleus IEA--

Find genes that share ontologies with SSX8           About GenesLikeMe


(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 GeneDecks, 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).
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Interactions:

    Search GeneGlobe Interaction Network for SSX8

Gene Ontology (GO): 2 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006351transcription, DNA-templated IEA--
GO:0006355regulation of transcription, DNA-templated IEA--

Find genes that share ontologies with SSX8           About GenesLikeMe



(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)
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(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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REFSEQ mRNAs for SSX8 gene: 
NM_174961.2  

3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000506270 ENST00000414360(uc011mob.1) ENST00000454586(uc011moa.1)

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2 AceView cDNA sequences:

NM_174961 BK000688 

GeneLoc Exon Structure


(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 GeneDecks, 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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SSX8 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
SSX8 Expression
About this image

SSX8 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SSX8 Protein Expression

UniProtKB/Swiss-Prot: SSX8_HUMAN, Q7RTT4
Tissue specificity: Not detected in any normal or tumor tissues

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In Situ
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(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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  --

ENSEMBL Gene Tree for SSX8 (if available)
TreeFam Gene Tree for SSX8 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for SSX8 gene
18 SIMAP similar genes for SSX8 using alignment to 1 protein entry:     SSX8_HUMAN:
SS18/SSX1 fusion    SSX1    SS18/SSX2 fusion    SSX6    SSX10    SSX2B
SSX3    SSX7    SSX9    SSX5    SSX4    SSX2
SSX4B    SYT-SSX1    SYT-SSX2    SSX-HSTT    PRDM7_V2    PRDM9

Find genes that share paralogs with SSX8           About GenesLikeMe



(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 SSX8 (see all 250)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr X posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1911021621,2
--52650083(+) AAACCC/TGCCCC 1 -- us2k10--------
rs1818363121,2
--52650114(+) TGTGGG/TGATTA 1 -- us2k10--------
rs1499645191,2
--52650888(+) CATTGC/GCCTGT 1 -- us2k10--------
rs59860241,2
C--52651004(+) ATGGGA/GGTAGG 1 -- us2k10--------
rs1863762701,2
--52651130(+) TATTTC/TTGCTT 1 -- us2k10--------
rs1491023731,2
--52651132(+) TTTCTG/TCTTCT 1 -- us2k10--------
rs1446080591,2
--52651211(+) AAATTG/TTTTTA 1 -- us2k10--------
rs1911719001,2
--52651223(+) AGAGAC/GGGGGG 1 -- us2k10--------
rs1825505811,2
--52651374(+) TCTCTC/TTCTCT 1 -- us2k10--------
rs596197151,2
C--52651394(+) AAGACG/AAGATC 1 -- us2k11Minor allele frequency- A:0.00WA 2

HapMap Linkage Disequilibrium report for SSX8 (52651985 - 52662998 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for SSX8:    About this table    
Variant IDTypeSubtypePubMed ID
esv2740170CNV Deletion23290073
esv21492CNV Gain19812545

Site Specific Mutation Identification with PCR Assays
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 300543    OMIM disorders: --

1 disease for SSX8:    
About MalaCards
synovial sarcoma


Find genes that share disorders with SSX8           About GenesLikeMe


Export disorders for SSX8 gene to outside databases

(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 SSX8 gene integrated from 10 sources:
(articles sorted by number of sources associating them with SSX8)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The SSX gene family: characterization of 9 complete genes. (PubMed id 12216073)1, 2, 3 Gure A.O.... Chen Y.-T. (Int. J. Cancer 2002)
  2. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (Nature 2005)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 280659 HGNC: 19654 AceView: SSX8 Ensembl:ENSG00000157965 euGenes: HUgn280659
ECgene: SSX8 H-InvDB: SSX8

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for SSX8 Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for SSX8 Genetics and Cytogenetics in Oncology and Haematology

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for SSX8 gene:
Search GeneIP for patents involving SSX8

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(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, 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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