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TBATA Gene

protein-coding   GIFtS: 37
GCID: GC10M072531

Thymus, Brain And Testes Associated

(Previous name: chromosome 10 open reading frame 27)
(Previous symbol: C10orf27)
  Search for TBATA
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
Thymus, Brain And Testes Associated1 2     Chromosome 10 Open Reading Frame 271
C10orf271 2 3 5     Protein TBATA2
Protein SPATIAL2 3     spatial2
Stromal Protein Associated With Thymii And Lymph Node Homolog2 3     SPATIAL3
Thymus, Brain And Testes-Associated Protein2 3     

External Ids:    HGNC: 235111   Entrez Gene: 2197932   Ensembl: ENSG000001662207   OMIM: 6126405   UniProtKB: Q96M533   

Export aliases for TBATA gene to outside databases


(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 TBATA Gene:
TBATA (thymus, brain and testes associated) is a protein-coding gene.

UniProtKB/Swiss-Prot: TBATA_HUMAN, Q96M53
Function: May play a role in spermatid differentiation (By similarity). Modulates thymic stromal cell
proliferation and thymus function (By similarity)




(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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RefSeq DNA sequence at NCBI GenBank:
NC_000010.10  NT_030059.14  NC_018921.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for TBATA
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for TBATA

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


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

Entrez Gene cytogenetic band: 10q22.1   Ensembl cytogenetic band:  10q22.1   HGNC cytogenetic band: 10q22.2

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

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M072531:  view genomic region     (about GC identifiers)

Start:
72,530,995 bp from pter      End:
72,545,157 bp from pter
Size:
14,163 bases      Orientation:
minus 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., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: TBATA_HUMAN, Q96M53 (See protein sequence)
Recommended Name: Protein TBATA  
Size: 351 amino acids; 39460 Da
Secondary accessions: A4QPA8 B2RPQ2 Q5T4G2
Alternative splicing: 2 isoforms:  Q96M53-1   Q96M53-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for TBATA: NX_Q96M53

Explore proteomics data for TBATA at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TBATA Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_689923.2  
    ENSEMBL proteins: 
     ENSP00000299290   ENSP00000400224   ENSP00000444940  

    TBATA Human Recombinant Protein Products:

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    Browse Proteins at Cloud-Clone Corp.

     
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    LSBio Antibodies in human, mouse, rat for TBATA

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    Search eBioscience for ELISAs for TBATA 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    ProtoNet protein and cluster: Q96M53

    UniProtKB/Swiss-Prot: TBATA_HUMAN, Q96M53
    Similarity: Belongs to the TBATA 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,
    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: TBATA_HUMAN, Q96M53
    Function: May play a role in spermatid differentiation (By similarity). Modulates thymic stromal cell
    proliferation and thymus function (By similarity)

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    Find genes that share ontologies with TBATA           About GenesLikeMe


    Phenotypes:
         4 MGI mutant phenotypes (inferred from 1 allele(MGI details for Tbata):
     hematopoietic system  immune system  nervous system  reproductive system 

    Find genes that share phenotypes with TBATA           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Tbatatm1Faf for TBATA

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TBATA
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for TBATA
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for TBATA

    miRNA
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    miRTarBase miRNAs that target TBATA:
    hsa-mir-335-5p (MIRT016841)

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    Search for qRT-PCR Assays for microRNAs that regulate TBATA
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    Predesigned siRNA for gene silencing in human, mouse, rat TBATA

    Gene Editing
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    Browse Sino Biological Human cDNA Clones
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TBATA

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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 UniProtKB/Swiss-Prot
    TBATA_HUMAN, Q96M53: Cytoplasm, cytosol (By similarity)

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ----
    GO:0005829cytosol ISS--

    Find genes that share ontologies with TBATA           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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TBATA
    Interactions:

        Search GeneGlobe Interaction Network for TBATA

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007275multicellular organismal development IEA--
    GO:0007283spermatogenesis IEA--
    GO:0030154cell differentiation IEA--

    Find genes that share ontologies with TBATA           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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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for TBATA



    (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 TBATA gene: 
    NM_152710.2  

    Unigene Cluster for TBATA:

    Thymus, brain and testes associated
    Hs.386698  [show with all ESTs]
    Unigene Representative Sequence: AK124147
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000299290(uc001jrj.1 uc010qjm.1 uc009xqh.1 uc010qjn.1 uc009xqi.1)
    ENST00000394982 ENST00000456372(uc010qjo.1 uc010qjp.1) ENST00000545575(uc009xqj.1)

    miRNA
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    Block miRNA regulation of human, mouse, rat TBATA using miScript Target Protectors
    Search for qRT-PCR Assays for microRNAs that regulate TBATA
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat TBATA
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    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TBATA
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TBATA
    Primer
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    OriGene qPCR primer pairs and template standards for TBATA
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    Search Pre-validated RT2 qPCR Primer Assays in human, mouse, rat TBATA
      QuantiTect SYBR Green Assays in human, mouse, rat TBATA
      QuantiFast Probe-based Assays in human, mouse, rat TBATA

    Additional mRNA sequence: 

    AK057382.1 AK124147.1 AK303242.1 AK303344.1 AK303491.1 AK310699.1 AK310732.1 BC127867.1 
    BC137543.1 BC137544.1 BC144692.1 BC144694.1 BC144695.1 

    8 DOTS entries:

    DT.99940926  DT.101966983  DT.121231769  DT.121231768  DT.121231772  DT.121231770  DT.75115486  DT.92046204 

    18 AceView cDNA sequences:

    BP368090 AI352340 AI216494 AK124147 BP366738 BP368189 AI017747 BP368024 
    BC060774 NM_152710 BP366436 BX106847 BP366731 BP366417 AK057382 AW172453 
    BI561350 AW269004 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for TBATA (see all 14)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c ^ 7a · 7b · 7c ^ 8a · 8b · 8c · 8d · 8e ^ 9a · 9b · 9c ^ 10a · 10b · 10c · 10d · 10e ^
    SP1:                          -     -           -                             -     -                                         -                                 
    SP2:                          -     -                                               -                                         -                                 
    SP3:                                                                                                                                                            
    SP4:                                            -     -     -     -     -     -     -                                         -                                 
    SP5:                                            -     -     -     -     -     -     -                                         -                                 

    ExUns: 11 ^ 12a · 12b
    SP1:        -         
    SP2:                  
    SP3:                  
    SP4:                  
    SP5:                  


    ECgene alternative splicing isoforms for TBATA

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


    TBATA expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 2) fully expand
     
     Skeletal Muscle (Muscoskeletal System)    fully expand to see all 2 entries
             Muscle Progenitor Cells Mandibular Arch Muscles
     
     Testis (Reproductive System)
    TBATA Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TBATA Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.386698
        Custom PCR Arrays for TBATA
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TBATA

    (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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    This gene was present in the common ancestor of chordates.

    Orthologs for TBATA gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tbata1 , 5 thymus, brain and testes associated1, 5 74.22(n)1
    65.99(a)1
      10 (32.16 cM)5
    659711  NM_001017419.21  NP_001017419.11 
     611719545 
    lizard
    (Anolis carolinensis)
    Reptilia TBATA6
    thymus, brain and testes associated
    37(a)
    1 ↔ 1
    3(50407686-50444525)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.156122 Transcribed sequence with weak similarity to protein more 71.72(n)    BX729396.1 
    zebrafish
    (Danio rerio)
    Actinopterygii tbata1 thymus, brain and testes associated 48.71(n)
    39.73(a)
      557892  XM_002667601.3  XP_002667647.2 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TBATA gene
    1 SIMAP similar gene for TBATA using alignment to 3 protein entries:     TBATA_HUMAN (see all proteins):
    C10orf27

    Find genes that share paralogs with TBATA           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 TBATA (see all 473)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1490970551,2
    Cuntested166524816(+) GCTTCG/AATGTC 2 /S /L mis11Minor allele frequency- A:0.00NA 4550
    rs2001730231,2
    Cuntested166524857(+) TGGAGA/GACTTG 2 V syn10--------
    rs1486952551,2
    C,Funtested166535334(+) ATGCCC/TGGCGG 2 Q R mis11Minor allele frequency- T:0.00NA 4552
    rs1840341961,2
    --66524215(+) TTGGAA/CAAGTT 1 -- ds50010--------
    rs1472200561,2
    --66524298(+) AGCTTC/TTACCT 1 -- ds50010--------
    rs1894486551,2
    --66524312(+) TCGCTA/GCCTCT 1 -- ds50010--------
    rs1128135651,2
    C,F--66524321(+) CTGTGC/TCCAGC 1 -- ds50013Minor allele frequency- T:0.05CSA WA 122
    rs1482657921,2
    --66524392(+) TTCCCC/TGACCT 1 -- ds50010--------
    rs1808977431,2
    C--66524507(+) AAAAGA/GACCAG 1 -- ds50010--------
    rs2007294671,2
    C--66524775(+) GGCAGG/TTGCAA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for TBATA (72530995 - 72545157 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for TBATA: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TBATA
    DNA2.0 Custom Variant and Variant Library Synthesis for TBATA

    (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: 612640    OMIM disorders: --


    Find genes that share disorders with TBATA           About GenesLikeMe


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

    1. Tbata modulates thymic stromal cell proliferation and thymus function. (PubMed id 20937703)1, 3 Flomerfelt F.A....Gress R.E. (J. Exp. Med. 2010)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (Nature 2004)
    4. Spatial (Tbata) expression in mature medullary thymic epithelial cells. (PubMed id 19918778)1 Saade M....Nguyen C. (Eur. J. Immunol. 2010)
    5. Evidence for association of chromosome 10 open reading frame (C10orf27) gene polymorphisms and multiple sclerosis. (PubMed id 18208870)1 Goertsches R....Comabella M. (Mult. Scler. 2008)
    6. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PubMed id 16385451)1 Grupe A....Goate A. (Am. J. Hum. Genet. 2006)
    7. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    9. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (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: 219793 HGNC: 23511 AceView: C10orf27 Ensembl:ENSG00000166220 euGenes: HUgn219793
    ECgene: TBATA H-InvDB: TBATA

    (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 TBATA Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

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    Patent Information for TBATA gene:
    Search GeneIP for patents involving TBATA

    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, LSBio, eBioscience, 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 inGenious Targeting Laboratory, genOway)
    About This Section

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     Custom PCR Arrays for TBATA Search Chromatin IP Primers for TBATA
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     Search Addgene for plasmids for TBATA
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      eBioscience FlowRNA Probe Sets
           
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