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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SSX8 Gene

pseudogene   GIFtS: 33
GCID: GC0XP052670

Synovial Sarcoma, X Breakpoint 8

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Synovial Sarcoma, X Breakpoint 81 2

External Ids:    HGNC: 196541   Entrez Gene: 2806592   Ensembl: ENSG000001579657   OMIM: 3005435   UniProtKB: Q7RTT43   
ORGUL members:         
NONCODE14:n387741 n387742      

Export aliases for SSX8 gene to outside databases

Previous GC identifers: GC0XM050364 GC0XP051305 GC0XP051618 GC0XP052535 GC0XP052668 GC0XP049780


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for SSX8 Gene: 
SSX8 (synovial sarcoma, X breakpoint 8) is a pseudogene, and is affiliated with the lncRNA class. Diseases associated with SSX8 include synovial sarcoma, and 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000023.10  NC_018934.2  NT_011630.14  
Regulatory elements:
   SABiosciences 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:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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 UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

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

SSX8 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

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Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

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

SSX8 for ontologies           About GeneDecksing



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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
3 InterPro protein domains:
 IPR003655 Krueppel-associated_box-rel
 IPR019041 SSXRD_motif
 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


SSX8 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

Molecular Function:

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

     Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003676nucleic acid binding IEA--
     
SSX8 for ontologies           About GeneDecksing


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(Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SSX8

Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

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

SSX8 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
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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,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
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Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for SSX8 gene: 
NM_174961.2  

Unigene Cluster for SSX8:

Synovial sarcoma, X breakpoint 8
Hs.694472
Unigene Representative Sequence: NR_027250
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000506270 ENST00000414360(uc011mob.1) ENST00000454586(uc011moa.1)

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Additional mRNA sequence: 

AK302291.1 NR_027250.2 

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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

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


SOURCE GeneReport for Unigene cluster: Hs.694472

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)
About This Section
  --

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)
About This Section
Paralogs for SSX8 gene
18/19 SIMAP similar genes for SSX8 using alignment to 1 protein entry:     SSX8_HUMAN(see all similar genes):
SS18/SSX1 fusion    SSX1    SSX6    SS18/SSX2 fusion    SSX10    SSX2B
SSX3    SSX7    SSX9    SSX5    SSX11    SSX4
SSX2    SSX4B    SYT-SSX1    SYT-SSX2    SSX-HSTT    PRDM7_V2

SSX8 for paralogs           About GeneDecksing



(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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

10/250 SNPs in SSX8 are shown (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

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
OMIM gene information: 300543    OMIM disorders: --

2 diseases for SSX8:    About MalaCards
synovial sarcoma    sarcoma


SSX8 for disorders           About GeneDecksing


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)
About This Section

PubMed articles for SSX8 gene integrated from 9 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. (2002)
  2. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 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)
About This Section
Entrez Gene: 280659 HGNC: 19654 AceView: SSX8 Ensembl:ENSG00000157965 euGenes: HUgn280659
ECgene: SSX8 H-InvDB: SSX8

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
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.)
About This Section
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



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