Atlas of Genetics and Cytogenetics in Oncology and Haematology


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T (T, brachyury homolog (mouse))

Identity

Other namesSAVA
TFT
HGNC (Hugo) T
LocusID (NCBI) 6862
Location 6q27
Location_base_pair Starts at 166571146 and ends at 166582157 bp from pter ( according to hg19-Feb_2009)
Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

Nomenclature
HGNC (Hugo)T   11515
Cards
Entrez_Gene (NCBI)T  6862  T, brachyury homolog (mouse)
GeneCards (Weizmann)T
Ensembl (Hinxton)ENSG00000164458 [Gene_View]  chr6:166571146-166582157 [Contig_View]  T [Vega]
ICGC DataPortalENSG00000164458
cBioPortalT
AceView (NCBI)T
Genatlas (Paris)T
WikiGenes6862
SOURCE (Princeton)NM_001270484 NM_003181
Genomic and cartography
GoldenPath (UCSC)T  -  6q27   chr6:166571146-166582157 -  6q27   [Description]    (hg19-Feb_2009)
EnsemblT - 6q27 [CytoView]
Mapping of homologs : NCBIT [Mapview]
OMIM182940   601397   615709   
Gene and transcription
Genbank (Entrez)AJ001699 BC039877 BC098425 BE785653 BG436736
RefSeq transcript (Entrez)NM_001270484 NM_003181
RefSeq genomic (Entrez)AC_000138 NC_000006 NC_018917 NG_012135 NT_025741 NW_001838992 NW_004929328
Consensus coding sequences : CCDS (NCBI)T
Cluster EST : UnigeneHs.742027 [ NCBI ]
CGAP (NCI)Hs.742027
Alternative Splicing : Fast-db (Paris)GSHG0027060
Alternative Splicing GalleryENSG00000164458
Gene ExpressionT [ NCBI-GEO ]     T [ SEEK ]   T [ MEM ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO15178 (Uniprot)
NextProtO15178  [Medical]
With graphics : InterProO15178
Splice isoforms : SwissVarO15178 (Swissvar)
Domaine pattern : Prosite (Expaxy)TBOX_1 (PS01283)    TBOX_2 (PS01264)    TBOX_3 (PS50252)   
Domains : Interpro (EBI)p53-like_TF_DNA-bd [organisation]   TF_Brachyury [organisation]   TF_T-box [organisation]   TF_T-box_CS [organisation]  
Related proteins : CluSTrO15178
Domain families : Pfam (Sanger)T-box (PF00907)   
Domain families : Pfam (NCBI)pfam00907   
Domain families : Smart (EMBL)TBOX (SM00425)  
DMDM Disease mutations6862
Blocks (Seattle)O15178
Human Protein AtlasENSG00000164458 [gene] [tissue] [antibody] [cell] [cancer]
Peptide AtlasO15178
HPRD03236
IPIIPI00005203   IPI00619896   
Protein Interaction databases
DIP (DOE-UCLA)O15178
IntAct (EBI)O15178
FunCoupENSG00000164458
BioGRIDT
InParanoidO15178
Interologous Interaction database O15178
IntegromeDBT
STRING (EMBL)T
Ontologies - Pathways
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  nuclear chromatin  RNA polymerase II core promoter proximal region sequence-specific DNA binding  RNA polymerase II distal enhancer sequence-specific DNA binding  RNA polymerase II transcription factor binding  RNA polymerase II activating transcription factor binding  RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription  vasculogenesis  somitogenesis  neural plate morphogenesis  neural tube closure  heart morphogenesis  positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation  sequence-specific DNA binding transcription factor activity  RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity  cytoplasm  transcription from RNA polymerase II promoter  signal transduction  penetration of zona pellucida  mesoderm development  mesoderm migration involved in gastrulation  positive regulation of cell proliferation  anterior/posterior axis specification, embryo  notochord formation  signal transduction involved in regulation of gene expression  BMP signaling pathway  post-anal tail morphogenesis  embryonic skeletal system development  canonical Wnt signaling pathway  bone morphogenesis  SMAD protein signal transduction  determination of heart left/right asymmetry  primitive streak formation  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  nuclear chromatin  RNA polymerase II core promoter proximal region sequence-specific DNA binding  RNA polymerase II distal enhancer sequence-specific DNA binding  RNA polymerase II transcription factor binding  RNA polymerase II activating transcription factor binding  RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription  vasculogenesis  somitogenesis  neural plate morphogenesis  neural tube closure  heart morphogenesis  positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation  sequence-specific DNA binding transcription factor activity  RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity  cytoplasm  transcription from RNA polymerase II promoter  signal transduction  penetration of zona pellucida  mesoderm development  mesoderm migration involved in gastrulation  positive regulation of cell proliferation  anterior/posterior axis specification, embryo  notochord formation  signal transduction involved in regulation of gene expression  BMP signaling pathway  post-anal tail morphogenesis  embryonic skeletal system development  canonical Wnt signaling pathway  bone morphogenesis  SMAD protein signal transduction  determination of heart left/right asymmetry  primitive streak formation  
Protein Interaction DatabaseT
Wikipedia pathwaysT
Gene fusion - rearrangments
Polymorphisms : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)T
snp3D : Map Gene to Disease6862
SNP (GeneSNP Utah)T
SNP : HGBaseT
Genetic variants : HAPMAPT
Exome VariantT
1000_GenomesT 
ICGC programENSG00000164458 
Somatic Mutations in Cancer : COSMICT 
CONAN: Copy Number AnalysisT 
Mutations and Diseases : HGMDT
Genomic VariantsT  T [DGVbeta]
dbVarT
ClinVarT
Pred. of missensesPolyPhen-2  SIFT(SG)  SIFT(JCVI)  Align-GVGD  MutAssessor  Mutanalyser  
Pred. splicesGeneSplicer  Human Splicing Finder  MaxEntScan  
Diseases
OMIM182940    601397    615709   
MedgenT
GENETestsT
Disease Genetic AssociationT
Huge Navigator T [HugePedia]  T [HugeCancerGEM]
General knowledge
Homologs : HomoloGeneT
Homology/Alignments : Family Browser (UCSC)T
Phylogenetic Trees/Animal Genes : TreeFamT
Chemical/Protein Interactions : CTD6862
Chemical/Pharm GKB GenePA36296
Clinical trialT
Cancer Resource (Charite)ENSG00000164458
Other databases
Probes
Litterature
PubMed39 Pubmed reference(s) in Entrez
CoreMineT
iHOPT
OncoSearchT
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2013Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Jul 30 14:20:18 CEST 2014

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For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.