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

TSSC4 Gene

protein-coding   GIFtS: 48
GCID: GC11P002421

Tumor Suppressing Subtransferable Candidate 4

  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

Aliases
Tumor Suppressing Subtransferable Candidate 41 2
Tumor-Suppressing STF CDNA 4 Protein2 3
Tumor-Suppressing Subchromosomal Transferable Fragment Candidate Gene 4
Protein2 3
Protein TSSC42

External Ids:    HGNC: 123861   Entrez Gene: 100782   Ensembl: ENSG000001842817   OMIM: 6038525   UniProtKB: Q9Y5U23   

Export aliases for TSSC4 gene to outside databases

Previous GC identifers: GC11P002483 GC11P002624 GC11P002381 GC11P002387 GC11P002378 GC11P002380 GC11P002213


(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 TSSC4 Gene:
This gene is one of several tumor-suppressing subtransferable fragments located in the imprinted gene domain of
11p15.5, an important tumor-suppressor gene region. Alterations in this region have been associated with the
Beckwith-Wiedemann syndrome, Wilms tumor, rhabdomyosarcoma, adrenocortical carcinoma, and lung, ovarian, and
breast cancer. This gene is located among several imprinted genes; however, this gene, as well as the
pan-hematopoietic expression gene (PHEMX), escapes imprinting. This gene may play a role in malignancies and
disease that involve this region. (provided by RefSeq, Jul 2008)

GeneCards Summary for TSSC4 Gene: 
TSSC4 (tumor suppressing subtransferable candidate 4) is a protein-coding gene. Diseases associated with TSSC4 include adrenocortical carcinoma, and beckwith-wiedemann syndrome.




(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_000011.9  NT_009237.18  NC_018922.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TSSC4 gene promoter:
         SREBP-1c   MyoD   STAT5A   GATA-1   YY1   SREBP-1b   E47   Ik-2   SREBP-1a   Hand1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): TSSC4 promoter sequence
   Search SABiosciences Chromatin IP Primers for TSSC4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TSSC4


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

Entrez Gene cytogenetic band: 11p15.5   Ensembl cytogenetic band:  11p15.5   HGNC cytogenetic band: 11p15.5

TSSC4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TSSC4 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P002421:  view genomic region     (about GC identifiers)

Start:
2,421,718 bp from pter      End:
2,425,106 bp from pter
Size:
3,389 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: TSSC4_HUMAN, Q9Y5U2 (See protein sequence)
Recommended Name: Protein TSSC4  
Size: 329 amino acids; 34326 Da
Secondary accessions: C9JS66 Q86VL2 Q9BRS6
Alternative splicing: 2 isoforms:  Q9Y5U2-1   Q9Y5U2-2   

Explore the universe of human proteins at neXtProt for TSSC4: NX_Q9Y5U2

Explore proteomics data for TSSC4 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9Y5U2

  • TSSC4 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TSSC4 Protein Expression
    REFSEQ proteins: NP_005697.2  
    ENSEMBL proteins: 
     ENSP00000370384   ENSP00000331087   ENSP00000370380   ENSP00000396925   ENSP00000403475  
     ENSP00000431430   ENSP00000416937   ENSP00000435013   ENSP00000411224  

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    Cloud-Clone Corp. CLIAs for TSSC4


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    ProtoNet protein and cluster: Q9Y5U2

    UniProtKB/Swiss-Prot: TSSC4_HUMAN, Q9Y5U2
    Similarity: Belongs to the TSSC4 family


    (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:
         Genatlas biochemistry entry for TSSC4:
    tumor suppressing subchromosomal transferable fragment (STF4),in a center of the 11p15 imprinted domain but
    escaping genomic imprinting

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for TSSC4 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for TSSC4

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for TSSC4 
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    Inhib. RNA
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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 TSSC4

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    5/7 Interacting proteins for TSSC4 (Q9Y5U22, 3 ENSP000003310874) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TAB1Q157502, 3MINT-8260383 I2D: score=2 
    SPTAN1Q138132, 3, ENSP000003618244MINT-64161 I2D: score=5 STRING: ENSP00000361824
    UBA1P223143, ENSP000003384134I2D: score=3 STRING: ENSP00000338413
    KPNA3O005053I2D: score=1 
    TERF2IPENSP000003000864STRING: ENSP00000300086
    About this table

    (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
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TSSC4

    Search CenterWatch for drugs/clinical trials and news about TSSC4

    (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,
    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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TSSC4 gene: 
    NM_005706.2  

    Unigene Cluster for TSSC4:

    Tumor suppressing subtransferable candidate 4
    Hs.523424  [show with all ESTs]
    Unigene Representative Sequence: BC050616
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000380996(uc001lwi.3) ENST00000333256(uc001lwk.3 uc001lwl.3)
    ENST00000380992 ENST00000437110 ENST00000435795 ENST00000485682 ENST00000440813
    ENST00000496468 ENST00000467308 ENST00000451491
    miRNA
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    Inhib. RNA
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    Browse for Gene Knock-down Tools from EMD Millipore
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    Sirion Biotech Customized lentivirus for stable overexpression of TSSC4 
                         Customized lentivirus expression plasmids for stable overexpression of TSSC4 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TSSC4
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TSSC4

    Additional mRNA sequence: 

    AF125568.1 BC006091.1 BC050616.1 

    4 DOTS entries:

    DT.114625  DT.99939205  DT.65285794  DT.97848265 

    24/247 AceView cDNA sequences (see all 247):

    CD621040 CR625385 CD673218 BQ214345 BI822329 CD671823 CF127464 BM727539 
    BM793855 BC050616 BM555343 BQ217026 AW167950 AI627557 BU145815 CR626346 
    AI867354 BI917267 BQ637823 BI772067 BM987209 BQ051497 BQ654335 AA368609 

    GeneLoc Exon Structure

    5/7 Alternative Splicing Database (ASD) splice patterns (SP) for TSSC4 (see all 7)    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b ^ 5a · 5b · 5c ^ 6a · 6b · 6c · 6d · 6e
    SP1:                          -     -                 -                 -     -                                 
    SP2:                          -     -     -     -     -                 -     -                                 
    SP3:                          -                 -     -                                                         
    SP4:                          -                       -                                                         
    SP5:                          -     -     -     -     -                                                         


    ECgene alternative splicing isoforms for TSSC4

    (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

    TSSC4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCAGCAGGAA
    TSSC4 Expression
    About this image


    See TSSC4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TSSC4

    SOURCE GeneReport for Unigene cluster: Hs.523424

    UniProtKB/Swiss-Prot: TSSC4_HUMAN, Q9Y5U2
    Tissue specificity: Expressed in fetal brain, lung, liver and kidney. Widely expressed in adult tissues

        SABiosciences Custom PCR Arrays for TSSC4
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TSSC4

    (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 chordates.

    Orthologs for TSSC4 gene from 4/9 species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tssc41 , 5 tumor-suppressing subchromosomal transferable fragment more1, 5 72.4(n)1
    65.91(a)1
      7 (88.11 cM)5
    568441  NM_001115085.11  NP_001108557.11 
     1430692495 
    chicken
    (Gallus gallus)
    Aves TSSC41 tumor suppressing subtransferable candidate 4 56.48(n)
    50.16(a)
      423092  NM_001006470.1  NP_001006470.1 
    lizard
    (Anolis carolinensis)
    Reptilia TSSC46
    Uncharacterized protein
    41(a)
    1 ↔ 1
    1(69516448-69517494)
    zebrafish
    (Danio rerio)
    Actinopterygii zgc:1532251 zgc:153225 48.55(n)
    40(a)
      559769  NM_001045848.1  NP_001039313.1 


    ENSEMBL Gene Tree for TSSC4 (if available)
    TreeFam Gene Tree for TSSC4 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (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

    10/148 SNPs in TSSC4 are shown (see all 148)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs751105971,2
    C,F--2421525(+) CCCAGA/CAGGAG 1 -- us2k11Minor allele frequency- C:0.15WA 118
    rs169282421,2
    C,F,H--2421531(+) AGGAGT/CGACGG 1 -- us2k1 tfbs313Minor allele frequency- C:0.15NA NS EA WA CSA 895
    rs1998379401,2
    --2421817(+) GGCGT-/GGAGGAGT 1 -- us2k10--------
    rs110226321,2
    C--2421824(+) AGGAGG/TAGAGG 1 -- us2k1 ese30--------
    rs1912573461,2
    --2421853(+) GGACTA/GCACGT 1 -- us2k10--------
    rs1834470111,2
    --2421856(+) CTACAA/CGTCCC 1 -- us2k10--------
    rs1859881701,2
    --2421965(+) GAGGGC/TTGAGC 1 -- us2k10--------
    rs1910983271,2
    --2421998(+) CGACCA/GAGATG 1 -- us2k10--------
    rs1170218691,2
    F--2422034(+) GTAGGT/ATTGTG 1 -- us2k11Minor allele frequency- A:0.04NA 120
    rs1835218381,2
    --2422247(+) TGGCAC/GCGAGA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for TSSC4 (2421718 - 2425106 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 9 variations for TSSC4:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv509382CNV Insertion20534489
    nsv896812CNV Loss21882294
    nsv469928CNV Loss18288195
    nsv896806CNV Loss21882294
    dgv1000n71CNV Loss21882294
    nsv896811CNV Loss21882294
    nsv896821CNV Loss21882294
    nsv896820CNV Loss21882294
    nsv467645CNV Gain19166990


    Human Gene Mutation Database (HGMD): TSSC4
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing TSSC4
    DNA2.0 Custom Variant and Variant Library Synthesis for TSSC4

    (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: 603852    OMIM disorders: --

    5 diseases for TSSC4:    About MalaCards
    adrenocortical carcinoma    beckwith-wiedemann syndrome    wilms tumor    rhabdomyosarcoma
    breast cancer

    1 disease from the University of Copenhagen DISEASES database for TSSC4:
    Beckwith-Wiedemann syndrome

    TSSC4 for disorders           About GeneDecksing


    Export disorders for TSSC4 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 TSSC4 gene, integrated from 9 sources (see all 21):
    (articles sorted by number of sources associating them with TSSC4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Two novel genes in the center of the 11p15 imprinted domain escape genomic imprinting. (PubMed id 10072438)1, 2, 3, 9 Lee M.P....Feinberg A.P. (1999)
    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. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    4. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    5. A directed protein interaction network for investigat ing intracellular signal transduction. (PubMed id 21900206)1 Vinayagam A....Wanker E.E. (2011)
    6. Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
    7. Genome-wide YFP fluorescence complementation screen id entifies new regulators for telomere signaling in human cells. (PubMed id 21044950)1 Lee O.H....Songyang Z. (2011)
    8. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
    9. Systematic analysis of human protein complexes identi fies chromosome segregation proteins. (PubMed id 20360068)1 Hutchins J.R....Peters J.M. (2010)
    10. Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. (PubMed id 19413330)2 Gauci S....Mohammed S. (2009)

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

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10078 HGNC: 12386 AceView: TSSC4 Ensembl:ENSG00000184281 euGenes: HUgn10078
    ECgene: TSSC4 H-InvDB: TSSC4

    (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 TSSC4 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for TSSC4 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 TSSC4 gene:
    Search GeneIP for patents involving TSSC4

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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