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

SS18L2 Gene

protein-coding   GIFtS: 47
GCID: GC03P042607

synovial sarcoma translocation gene on chromosome 18-like...
 Explore 2 diseases affiliated with
SS18L2 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SS18L2    

Aliases
for SS18L2 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Synovial Sarcoma Translocation Gene On Chromosome 18-Like 21 2
KIAA-Iso1
SYT Homolog 22 3
SS18-Like Protein 22

External Ids:    HGNC: 155931   Entrez Gene: 511882   Ensembl: ENSG000000083247   OMIM: 6064735   UniProtKB: Q9UHA23   

Export aliases for SS18L2 gene to outside databases

Previous GC identifers: GC03P041937 GC03P041812 GC03P042442 GC03P042592 GC03P042569


Summaries
for SS18L2 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for SS18L2:
Synovial sarcomas occur most frequently in the extremities around large joints. More than 90% of cases have a recurrent
and specific chromosomal translocation, t(X;18)(p11.2;q11.2), in which the 5-prime end of the SS18 gene (MIM 600192)
is fused in-frame to the 3-prime end of the SSX1 (MIM 312820), SSX2 (MIM 300192), or SSX4 (MIM 300326) gene. The
SS18L2 gene is homologous to SS18.(supplied by OMIM, Jul 2002)




Genomic Views
for SS18L2 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000003.11  NC_018914.1  NT_022517.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SS18L2 gene promoter:
         HEN1   AP-4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: SS18L2 promoter sequence
   Search SABiosciences Chromatin IP Primers for SS18L2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SS18L2


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

Entrez Gene cytogenetic band: 3p21   Ensembl cytogenetic band:  3p22.1   HGNC cytogenetic band: 3p21

SS18L2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SS18L2 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P042607:  view genomic region     (about GC identifiers)

Start:
 42,623,332 bp from pter      End:
 42,636,606 bp from pter
Size:
 13,275 bases      Orientation:
 plus strand

Proteins
for SS18L2 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: S18L2_HUMAN, Q9UHA2 (See protein sequence)
Recommended Name: SS18-like protein 2  
Size: 77 amino acids; 8835 Da
Secondary accessions: B2R5L1

Explore the universe of human proteins at neXtProt for SS18L2: NX_Q9UHA2

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9UHA2

    • SS18L2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_057389.1  
    ENSEMBL proteins: 
     ENSP00000401115   ENSP00000011691  

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    Protein Domains /
    Families
    for SS18L2 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SS18L2 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR007726 SSXT

    Graphical View of Domain Structure for InterPro Entry Q9UHA2

    ProtoNet protein and cluster: Q9UHA2

    1 Blocks protein family: IPB007726 SSXT

    UniProtKB/Swiss-Prot: S18L2_HUMAN, Q9UHA2
    Similarity: Belongs to the SS18 family


    Function
    for SS18L2 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
    Products:            		 OriGene 3'-UTR Clone: SS18L2
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SS18L2
    8/10 QIAGEN miScript miRNA Assays for microRNAs that regulate SS18L2 (see all 10):
    hsa-miR-136 hsa-miR-130a* hsa-miR-944 hsa-miR-23c hsa-miR-4275 hsa-miR-877* hsa-miR-23b hsa-miR-23a
    SwitchGear 3'UTR luciferase reporter plasmid: SS18L2 3' UTR sequence
    Inhib. RNA
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    In Situ Assay
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    5 GenomeRNAi human phenotypes for SS18L2:
     Cell cycle / mitosis defect  Decreased number of cells in m  G0/1 arrest  Increased G1 DNA content 
     Increased cell number in S and 


    Pathways & Interactions
    for SS18L2 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SS18L2

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for SS18L2 (ENSP000000116914) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Drugs & Compounds
    for SS18L2 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SS18L2
    Search CenterWatch for drugs/clinical trials and news about SS18L2 / S18L2 

    Transcripts
    for SS18L2 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for SS18L2 gene: 
    NM_016305.2  

    Unigene Cluster for SS18L2:

    Synovial sarcoma translocation gene on chromosome 18-like 2
    Hs.534454  [show with all ESTs]
    Unigene Representative Sequence: BQ067724
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000447630 ENST00000474941 ENST00000011691(uc003clk.1)

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    8/10 QIAGEN miScript miRNA Assays for microRNAs that regulate SS18L2 (see all 10):
    hsa-miR-136 hsa-miR-130a* hsa-miR-944 hsa-miR-23c hsa-miR-4275 hsa-miR-877* hsa-miR-23b hsa-miR-23a
    SwitchGear 3'UTR luciferase reporter plasmid: SS18L2 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SS18L2 (see all 4)
    OriGene shRNA RFP: SS18L2
    OriGene siRNA: SS18L2
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SS18L2
    Clone
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    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SS18L2
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SS18L2

    Additional cDNA sequence: 

    AK312225.1 BC017804.1 BC020444.1 

    7 DOTS entries:

    DT.92426366  DT.317454  DT.40247722  DT.92426363  DT.100789027  DT.423274  DT.95303159 

    24/181 AceView cDNA sequences (see all 181):

    CB143409 BU689224 AA056940 AA036764 AA970154 AA295082 AA480202 AI359379 
    AI857372 AA912137 AA670388 AI952844 AA181163 BX114027 AI745181 AA083794 
    AA995919 AA353571 AA885213 AA164296 AA694271 AA035311 W37611 W79384 

    GeneLoc Exon Structure


    Expression
    for SS18L2 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 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

    SS18L2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TAACTGTGTG

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    SS18L2 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    5 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    BoneAutopod Long BoneBone
    BoneEndochondral Facial BonesBone
    BoneThoracic RibBone
    BoneZeugopod Long BoneBone
    CartilageMeckel's CartilageCartilage
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SS18L2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SS18L2

    SOURCE GeneReport for Unigene cluster: Hs.534454
        SABiosciences Custom PCR Arrays for SS18L2
    Primer
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SS18L2
    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SS18L2

    Orthologs
    for SS18L2 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)
    About This Section
    This gene was present in the common ancestor of eukaryotes.

    Orthologs for SS18L2 gene from 6/17 species (see all 17)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves SS18L21 synovial sarcoma translocation gene on chromosome 18-like more 79.22(n)
    80.52(a)    		   769135  XM_001231860.2  XP_001231861.1 
    lizard
    (Anolis carolinensis)    		 Reptilia SS18L26
    		 --
    		 76(a)
    		 1 ↔ 1
    		 GL343773.1(80702-85115)
    African clawed frog
    (Xenopus laevis)    		 Amphibia Xl.132152 Xenopus laevis transcribed sequence with moderate similarity more 81.89(n)    BJ096067.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii zgc:1120971 zgc:112097 69.12(n)
    75(a)    		   550446  NM_001159821.1  NP_001153293.1 
    thale cress
    (Arabidopsis thaliana)    		 eudicotyledons AN36
    GIF36
    (see all 3)    		 GRF1-interacting factor 3
    (see all 3)    		 14(a)
    13(a)
    (see all 3)    		 many ↔ many
    many ↔ many
    (see all 3)    		 5(10647570-10649892)
    4(357551-359194)
    rice
    (Oryza sativa)    		 Liliopsida --
    --
    (see all 3)    		 GRF-interacting factor 2, putative, expressed
    (see all 3)    		 17(a)
    16(a)
    (see all 3)    		 many ↔ many
    many ↔ many
    (see all 3)    		 12(18827072-18832082)
    11(23447472-23451072)


    ENSEMBL Gene Tree for SS18L2 (if available)
    TreeFam Gene Tree for SS18L2 (if available) 

    Paralogs
    for SS18L2 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SS18L2 gene
    SS18L12  SS182  
    5 SIMAP similar genes for SS18L2 using alignment to 1 protein entry:     S18L2_HUMAN:
    SS18L1    SS18    SYT    SYT-SSX1    SYT-SSX2

    SS18L2 for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for SS18L2
    PGOHUM00000238720 PGOHUM00000234931


    Genomic Variants
    for SS18L2 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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
    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SS18L2
    DNA2.0 Custom Variant and Variant Library Synthesis for SS18L2

    Disorders / Diseases
    for SS18L2 gene

    (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.)
    About This Section
    SS18L2 for disorders           About GeneDecksing

    OMIM gene information: 606473    OMIM disorders: --

    2 diseases for SS18L2:    About MalaCards
    synovial sarcoma    sarcoma

    1 disease from the University of Copenhagen DISEASES database for SS18L2:
    Synovial sarcoma

    Export disorders for SS18L2 gene to outside databases

    Publications
    for SS18L2 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)
    About This Section

    PubMed articles for SS18L2 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SS18L2)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Mapping and characterization of the mouse and human SS18 genes, two human SS18-like genes and a mouse Ss18 pseudogene. (PubMed id 11435705)1, 3, 9 de Bruijn D.R....Geurts Van Kessel A. (2001)
    2. 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)
    3. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    4. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    6. 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)
    7. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)
    8. Common origin of the human synovial sarcoma associated SS18 and SS18L1 gene loci. (PubMed id 16484776)9 de Bruijn D.R. and Geurts van Kessel A. (2006)

    External Searches for SS18L2 gene

    (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)

    Genome Databases showing SS18L2 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 51188 HGNC: 15593 AceView: SS18L2 Ensembl:ENSG00000008324 euGenes: HUgn51188
    ECgene: SS18L2 H-InvDB: SS18L2

    Other Databases showing SS18L2 gene

    (According to HUGE)
    About This Section
    HUGE: KIAA-iso

    Specialized Databases showing SS18L2 gene

    (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 SS18L2 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SS18L2 Genetics and Cytogenetics in Oncology and Haematology

    Intellectual Property
    for SS18L2 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for SS18L2 gene:
    Search GeneIP for patents involving SS18L2

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



    Products
    for SS18L2 gene

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    About This Section

     
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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