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Aliases & Descriptions for SS18
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Aliases MGC116875 2 SSXT 2 , 3 , 5 SYT 1 , 2 , 3 , 5 SYT-SSX1 2 SYT-SSX2 2
Descriptions Protein SYT 3 SSXT/SSX4v fusion 2 SYT/SSX4v fusion protein 2 Synovial sarcoma, translocated to X chromosome 2 , 3 synovial sarcoma translocation, chromosome 18 2
Search outside databases for aliases for SS18 genePrevious GC identifers: GC18M023570 GC18M023308 GC18M021848
Summaries for SS18 (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
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Gene Wiki entry for SS18
Genomic Location for SS18
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 36) ,
and/or miRBase ,
Genomic Views according to
UCSC and
Ensembl ,
Transcription factor binding sites according to
SABiosciences )About This Section
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the SS18 gene Entrez Gene cytogenetic band: 18q11.2 Ensembl cytogenetic band: 18q11.2 HGNC cytogenetic band: 18q11.2 SS18 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 18 GeneLoc Exon Structure
GeneLoc location for GC18M021850:
(about GC identifiers )
Start:
21,850,215 bp from pter
End:
21,924,609 bp from pter
Size:
74,395 bases
Orientation:
minus strand
RefSeq DNA sequence: NC_000018.8 NT_010966.13 Proteins for SS18
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Enzo Life Sciences ,
Abnova ,
OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
Millipore ,
R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
Antibodies by Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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UniProtKB/Swiss-Prot: SSXT_HUMAN, Q15532 (See
protein sequence )Recommended Name: Protein SSXT Size : 418 amino acids; 45929 Da
Secondary accessions : Q16404 Q4VAX1 Q9BXC6Alternative splicing : 2 isoforms : Q15532-1 Q15532-2
Post-translational modifications:
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins (2 alternative transcripts):
NP_001007560.1 NP_005628.2 ENSEMBL proteins: ENSP00000269138 ENSP00000269137 Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 1 Gene Ontology (GO) cellular component term (links to tree view) :
About this table Antibodies for SS18: Assays for SS18:
Protein
Domains/ Families for SS18(According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
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Graphical View of Domain Structure for InterPro Entry Q15532 ProtoNet protein and cluster: Q15532
1 Blocks protein family : IPB007726 SSXT UniProtKB/Swiss-Prot: SSXT_HUMAN, Q15532 Similarity : Belongs to the SS18 family
Gene Function for SS18
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
shRNA from
OriGene ,
Sigma-Aldrich , RNAi from
Sigma-Aldrich ,
RNAi Products ,
Clones , and
Q-PCR Products
from Invitrogen ,
Millipore ,
OriGene , and/or
Abnova ,
siRNAs from
Applied Biosystems ,
SYBR primers from OriGene ,
Cell-based Assays from Millipore ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_005637 Applied Biosystems Silencer ® siRNAs for SS18 Sigma-Aldrich siRNA and siRNA Panels for SS18 Sigma-Aldrich shRNA for SS18 Explore Sigma-Aldrich super-pooled esiRNAs                OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_001007559                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_001007559                                  untagged cDNA clones in CMV expression vector (see all 5 ): AK092611  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_001007559
7 MGI mutant phenotypes (inferred from 1 allele ) (MGI details for Ss18) : Pathways & Interactions for SS18
(Pathways according to Invitrogen
(maps by GeneGo ),
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Proteins Network according to
SABiosciences ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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Gene Network CentralTM Interacting Genes and Proteins Network for SS18 5/10 Interacting proteins for SS18 (ENSP00000269138 3 ) via UniProtKB, MINT, and/or STRING (see all 10
)About this table
Drugs & Compounds for SS18 (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 )
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Browse Tocris compounds for SS18 2 Novoseek chemical compound relationships for SS18 gene
About this table 2 PharmGKB drug compound relationships for SS18 gene About this table
Transcripts for SS18(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
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 Invitrogen ,
Millipore , and/or
Abnova ,
siRNAs from Applied Biosystems ,
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shRNA from
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OriGene ,
Tagged/untagged cDNA clones from
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_005637 Sigma-Aldrich siRNA and siRNA Panels for SS18 Sigma-Aldrich shRNA for SS18 Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_001007559 NM_005637
REFSEQ mRNAs for SS18 gene (2 alternative transcripts): NM_001007559.1 NM_005637.2
Applied Biosystems TaqMan ® Gene Expression Assays: NM_001007559 NM_005637
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_001007559                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_001007559                                  untagged cDNA clones in CMV expression vector (see all 5 ): AK092611  
Additional cDNA sequence: AB300354.1 AB300355.1 AB300356.1 AB300357.1 AF244972.1 AF257501.1 AF343880.1 AF402618.1 AK289510.1 AK296949.1 AK299082.1 AK301504.1 AK304305.1 AK307923.1 AK316302.1 AK316338.1 BC096221.1 BC096222.1 BC096223.1 BC096224.1 CR542088.1 CR542103.1 X79201.1
20 DOTS entries : DT.113857 DT.121097311 DT.100745105 DT.105718 DT.100798265 DT.121097290 DT.121097277 DT.75145663 DT.95276193 DT.100714045 DT.100798264 DT.101962724 DT.121097281 DT.121097284 DT.121097299 DT.121097302 DT.75107159 DT.97843921 DT.100798261 DT.91657720
24/248 AceView cDNA sequences (see all 248
):AA723137 CF529036 BE301610 BU521546 CB148207 CD364665 AW440568 CB068575 N59206 BM992802 BP370482 BF330745 BQ212753 AA376490 CA442904 BP360387 BE677244 BX486685 AW078821 BU687887 CK823193 AI458444 BX327397 BM472976
highest scoring ESTs for SS18 :X79201 AF244972 AF343880 AL134212 AL710073 AL710674 AU279615 AW367441 AW501965 AW504370
Unigene Cluster for SS18: Synovial sarcoma translocation, chromosome 18 Hs.404263 [show with all ESTs ] Unigene Representative Sequence: NM_001007559 GeneLoc Exon Structure 5/14 Alternative Splicing Database (ASD) splice patterns (SP) for SS18 (see all 14
) ExUns: 1a · 1b ^ 2a · 2b · 2c · 2d · 2e ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b · 11c · 11d · 11e ^ 12a · 12b ^ SP1 :               -   -   -     -   -   -     -   -                     SP2 :               -   -   -     -   -   -     -   -                     SP3 :               -   -   -     -   -   -       -                     SP4 :               -   -   -     -     -     -   -                     SP5 :               -   -   -       -   -     -   -                    
ExUns: 13 ^ 14 ^ 15a · 15b ^ 16a · 16b ^ 17 SP1 :     -           SP2 :   -   -           SP3 :               SP4 :               SP5 :              
About this scheme ECgene alternative splicing isoforms for SS18 2 Ensembl transcripts including schematic representations : ENST00000269138
ENST00000269137
Expression for SS18
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Expression Assays from
Applied Biosystems
)
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SS18 expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for SS18 1 / 2 / 3
11 probe-sets matching SS18 gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: GACAGCCTTASOURCE GeneReport for Unigene cluster: Hs.404263 Expression variation in blood from EXPOLDB for SS18
UniProtKB/Swiss-Prot: SSXT_HUMAN, Q15532 Tissue specificity : Fairly ubiquitously expressed. Expressed in synovial sarcomas and in otherhuman cell lines. The fusion genes SSXT-SSX1 and SSXT-SSX2 are expressed only in synovial sarcomas
Orthologs for SS18
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
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Orthologs for SS18 gene from 5/8 species (see all 8
)
About this table Species with no ortholog for SS18 ENSEMBL Gene Tree for SS18 Paralogs for SS18 (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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Paralogs for SS18 gene SS18L1 2 SS18L2 2
SNPs/Variants for SS18 (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for SS18 (up to first 250kb)
Disorders & Mutations for SS18
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
Novoseek , PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
HGMD, GAD ,
HuGE Navigator ,
BCGD ,
and/or TGDB .)
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OMIM: 600192 UniProtKB/Swiss-Prot: SSXT_HUMAN, Q15532
A chromosomal aberration involving SS18 may be a cause of synovial sarcoma. Translocationt(X;18)(p11.2;q11.2). The translocation is specifically found in more than 80% of synovialsarcoma. The fusion products SSXT-SSX1 or SSXT-SSX2 are probably responsible for transformingactivity. Heterogeneity in the position of the breakpoint can occur (low frequency)
5 Novoseek disease relationships for SS18 gene
About this table 1 PharmGKB disease relationship for SS18 gene About this table
Medical News for SS18 (Possibly Related Articles in
Doctor's Guide )
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--
Publications for SS18 (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
7 PharmGKB )
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10/78 PubMed articles for SS18 gene (see all 78
): Identification of novel genes, SYT and SSX, involved in the t(X;18)(p11.2;q11.2) translocation found in human synovial sarcoma. (PubMed id 7951320) 1, 2, 3, 4 Clark J....Cooper C.S. (1994) 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, 3, 4 Brodin B.... Larsson O. (2001) Common origin of the human synovial sarcoma associated SS18 and SS18L1 gene loci. (PubMed id 16484776) 1, 2, 3 de Bruijn D.R. and Geurts van Kessel A. (2006) Molecular diagnosis of synovial sarcoma and characterization of a variant SYT-SSX2 fusion transcript. (PubMed id 7495284) 1, 3, 4 Fligman I....Ladanyi M. (1995) The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334) 3, 4 Gerhard D.S....Malek J. (2004) The t(X;18)(p11.2;q11.2) translocation found in human synovial sarcomas involves two distinct loci on the X chromosome. (PubMed id 8152806) 2, 3 Shipley J.M....Gusterson B.A. (1994) The synovial sarcoma associated protein SYT interacts with the acute leukemia associated protein AF10. (PubMed id 11423977) 1, 3 de Bruijn D.R....Geurts van Kessel A. (2001) Functional domains of the SYT and SYT-SSX synovial sarcoma translocation proteins and co-localization with the SNF protein BRM in the nucleus. (PubMed id 10072425) 1, 3 Thaete C....Goodwin G. (1999) Identification of a novel spliced variant of the SYT gene expressed in normal tissues and in synovial sarcoma. (PubMed id 11308259) 1, 3 Tamborini E....Pilotti S. (2001) The proto-oncoprotein SYT interacts with SYT-interacting protein/co-activator activator (SIP/CoAA), a human nuclear receptor co-activator with similarity to EWS and TLS/FUS family of proteins. (PubMed id 16227627) 1, 3 Perani M....Goodwin G.H. (2005)
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Genome Databases showing SS18
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
and/or
H-InvDB )
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Other Databases showing SS18
(According to HUGE )
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Specialized Databases showing SS18 (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
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-- Services for SS18 (Reagents available from Applied Biosystems , Antibodies and assays by Cell
Signaling Technology , Abcam , Novus Biologicals ,Sigma-Aldrich , R&D Systems , Millipore , Abnova , and/or Invitrogen , Clones available from OriGene ,and/or Invitrogen , Drugs and/or compounds by Sigma-Aldrich , Enzo Life Sciences , and/or Tocris Bioscience )About This Section
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