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Aliases for TBATA Gene

Aliases for TBATA Gene

  • Thymus, Brain And Testes Associated 2 3 5
  • Stromal Protein Associated With Thymii And Lymph Node Homolog 3 4
  • Thymus, Brain And Testes-Associated Protein 3 4
  • C10orf27 3 4
  • SPATIAL 3 4
  • Chromosome 10 Open Reading Frame 27 2
  • Protein SPATIAL 4
  • Protein TBATA 3

External Ids for TBATA Gene

Previous HGNC Symbols for TBATA Gene

  • C10orf27

Previous GeneCards Identifiers for TBATA Gene

  • GC10M072531

Summaries for TBATA Gene

Entrez Gene Summary for TBATA Gene

  • This gene encodes a protein that regulates thymic epithelial cell proliferation and thymus size. It has been identified as a ligand for the class I human leukocyte antigen (HLA-I) in thymus. Studies of the orthologous mouse protein suggest that it may also play a role in spermatid differentiation, as well as in neuronal morphogenesis and synaptic plasticity. Polymorphisms in this gene are associated with susceptibility for multiple sclerosis (MS). Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2015]

GeneCards Summary for TBATA Gene

TBATA (Thymus, Brain And Testes Associated) is a Protein Coding gene. Diseases associated with TBATA include Neurotic Disorder and Multiple Sclerosis.

UniProtKB/Swiss-Prot for TBATA Gene

  • May play a role in spermatid differentiation. Modulates thymic stromal cell proliferation and thymus function.

Additional gene information for TBATA Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TBATA Gene

Genomics for TBATA Gene

GeneHancer (GH) Regulatory Elements for TBATA Gene

Promoters and enhancers for TBATA Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10J070785 Promoter/Enhancer 0.9 EPDnew ENCODE 650.7 +0.0 21 0.2 RFX1 REST TBATA ADAMTS14
GH10J070786 Enhancer 0.2 ENCODE 650.7 -1.6 -1619 0.2 TBATA GC10M070795
GH10J070759 Enhancer 1 Ensembl ENCODE 12 +26.1 26100 0.6 ATF1 ARNT NFRKB INSM2 SIN3A ZBTB40 RAD21 ARID2 EGR1 ZNF366 TBATA PCBD1 TYSND1 ADAMTS14
GH10J070760 Enhancer 0.5 ENCODE 17.8 +24.1 24086 1.4 CTCF CTBP2 HNF4A RAD21 TBATA ADAMTS14
GH10J070756 Enhancer 0.7 ENCODE dbSUPER 12 +28.5 28497 0.9 MITF FOSL1 ATF4 CEBPB CEBPG NR2C2 ADAMTS14 TBATA PCBD1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TBATA on UCSC Golden Path with GeneCards custom track

Genomic Locations for TBATA Gene

Genomic Locations for TBATA Gene
chr10:70,771,238-70,785,401
(GRCh38/hg38)
Size:
14,164 bases
Orientation:
Minus strand
chr10:72,530,995-72,545,157
(GRCh37/hg19)

Genomic View for TBATA Gene

Genes around TBATA on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TBATA Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TBATA Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TBATA Gene

Proteins for TBATA Gene

  • Protein details for TBATA Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96M53-TBATA_HUMAN
    Recommended name:
    Protein TBATA
    Protein Accession:
    Q96M53
    Secondary Accessions:
    • A4QPA8
    • B2RPQ2
    • Q5T4G2

    Protein attributes for TBATA Gene

    Size:
    351 amino acids
    Molecular mass:
    39460 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for TBATA Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TBATA Gene

Post-translational modifications for TBATA Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TBATA Gene

Domains & Families for TBATA Gene

Gene Families for TBATA Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for TBATA Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q96M53

UniProtKB/Swiss-Prot:

TBATA_HUMAN :
  • Belongs to the TBATA family.
Family:
  • Belongs to the TBATA family.
genes like me logo Genes that share domains with TBATA: view

Function for TBATA Gene

Molecular function for TBATA Gene

UniProtKB/Swiss-Prot Function:
May play a role in spermatid differentiation. Modulates thymic stromal cell proliferation and thymus function.

Phenotypes From GWAS Catalog for TBATA Gene

genes like me logo Genes that share phenotypes with TBATA: view

Animal Models for TBATA Gene

MGI Knock Outs for TBATA:

Animal Model Products

CRISPR Products

miRNA for TBATA Gene

miRTarBase miRNAs that target TBATA

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TBATA

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TBATA Gene

Localization for TBATA Gene

Subcellular locations from UniProtKB/Swiss-Prot for TBATA Gene

Cytoplasm, cytosol.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TBATA gene
Compartment Confidence
cytosol 5
nucleus 2
cytoskeleton 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for TBATA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol ISS --
genes like me logo Genes that share ontologies with TBATA: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TBATA Gene

Pathways & Interactions for TBATA Gene

SuperPathways for TBATA Gene

No Data Available

Interacting Proteins for TBATA Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000299290%0d%0a9606.ENSP00000354340%0d%0a
Selected Interacting proteins: ENSP00000299290 Q96M53-TBATA_HUMAN for TBATA Gene via STRING IID

Gene Ontology (GO) - Biological Process for TBATA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
GO:0007283 spermatogenesis IEA --
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with TBATA: view

No data available for Pathways by source and SIGNOR curated interactions for TBATA Gene

Drugs & Compounds for TBATA Gene

No Compound Related Data Available

Transcripts for TBATA Gene

mRNA/cDNA for TBATA Gene

(18) Selected AceView cDNA sequences:
(13) Additional mRNA sequences :
(22) REFSEQ mRNAs :
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TBATA Gene

Thymus, brain and testes associated:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TBATA

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TBATA Gene

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: - - - - - - - -
SP6: - -
SP7: - -
SP8: - - -
SP9: - - - -
SP10: - -
SP11: - - - - - - - - - -
SP12:
SP13: - - -
SP14: - - -

ExUns: 11 ^ 12a · 12b
SP1: -
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:

Relevant External Links for TBATA Gene

GeneLoc Exon Structure for
TBATA
ECgene alternative splicing isoforms for
TBATA

Expression for TBATA Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TBATA Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TBATA Gene

This gene is overexpressed in Testis (x47.1).

Protein differential expression in normal tissues from HIPED for TBATA Gene

This gene is overexpressed in Cerebrospinal fluid (67.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for TBATA Gene



Protein tissue co-expression partners for TBATA Gene

NURSA nuclear receptor signaling pathways regulating expression of TBATA Gene:

TBATA

SOURCE GeneReport for Unigene cluster for TBATA Gene:

Hs.386698
genes like me logo Genes that share expression patterns with TBATA: view

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TBATA Gene

Orthologs for TBATA Gene

This gene was present in the common ancestor of chordates.

Orthologs for TBATA Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TBATA 34 33
  • 98.67 (n)
OneToOne
cow
(Bos Taurus)
Mammalia TBATA 34 33
  • 81.91 (n)
OneToOne
dog
(Canis familiaris)
Mammalia TBATA 34 33
  • 81.32 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Tbata 16 34 33
  • 74.22 (n)
rat
(Rattus norvegicus)
Mammalia Tbata 33
  • 72.53 (n)
oppossum
(Monodelphis domestica)
Mammalia TBATA 34
  • 42 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TBATA 34
  • 41 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TBATA 34
  • 37 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC101731705 33
  • 54.6 (n)
Str.15612 33
zebrafish
(Danio rerio)
Actinopterygii tbata 34 33
  • 48.71 (n)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7069 34
  • 23 (a)
OneToOne
Species where no ortholog for TBATA was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TBATA Gene

ENSEMBL:
Gene Tree for TBATA (if available)
TreeFam:
Gene Tree for TBATA (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TBATA: view image

Paralogs for TBATA Gene

(1) SIMAP similar genes for TBATA Gene using alignment to 3 proteins:

  • TBATA_HUMAN
  • F5H4G4_HUMAN
  • Q5T4G3_HUMAN
genes like me logo Genes that share paralogs with TBATA: view

No data available for Paralogs for TBATA Gene

Variants for TBATA Gene

Sequence variations from dbSNP and Humsavar for TBATA Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs759944122 likely-pathogenic, Hirschsprung disease 1 70,781,921(-) G/A coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs1000093566 -- 70,779,135(-) C/T intron_variant
rs1000113995 -- 70,774,158(-) C/T downstream_transcript_variant, genic_downstream_transcript_variant, intron_variant
rs1000243409 -- 70,775,001(-) G/C downstream_transcript_variant, genic_downstream_transcript_variant, intron_variant
rs1000557850 -- 70,783,083(-) C/T genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for TBATA Gene

Variant ID Type Subtype PubMed ID
esv32737 CNV gain+loss 17666407
esv3302857 CNV tandem duplication 20981092
esv3891856 CNV gain 25118596
nsv1043245 CNV loss 25217958
nsv524058 CNV loss 19592680
nsv831909 CNV loss 17160897

Variation tolerance for TBATA Gene

Residual Variation Intolerance Score: 89.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.88; 35.18% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TBATA Gene

Human Gene Mutation Database (HGMD)
TBATA
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TBATA

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TBATA Gene

Disorders for TBATA Gene

MalaCards: The human disease database

(3) MalaCards diseases for TBATA Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
neurotic disorder
  • depressive neurosis
multiple sclerosis
  • multiple sclerosis, susceptibility to
hirschsprung disease 1
  • hirschsprung disease, susceptibility to, 1
- elite association - COSMIC cancer census association via MalaCards
Search TBATA in MalaCards View complete list of genes associated with diseases

Additional Disease Information for TBATA

genes like me logo Genes that share disorders with TBATA: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TBATA Gene

Publications for TBATA Gene

  1. Tbata modulates thymic stromal cell proliferation and thymus function. (PMID: 20937703) Flomerfelt FA … Gress RE (The Journal of experimental medicine 2010) 2 3 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. The DNA sequence and comparative analysis of human chromosome 10. (PMID: 15164054) Deloukas P … Rogers J (Nature 2004) 3 4 58
  4. Peptides presented by HLA class I molecules in the human thymus. (PMID: 24029068) Espinosa G … Alvarez I (Journal of proteomics 2013) 3 58
  5. Spatial (Tbata) expression in mature medullary thymic epithelial cells. (PMID: 19918778) Saade M … Nguyen C (European journal of immunology 2010) 3 58

Products for TBATA Gene

Sources for TBATA Gene

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