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Tbxt T-box transcription factor T [ Rattus norvegicus (Norway rat) ]

Gene ID: 292301, updated on 12-Aug-2018

Summary

Official Symbol
Tbxtprovided by RGD
Official Full Name
T-box transcription factor Tprovided by RGD
Primary source
RGD:1310141
See related
Ensembl:ENSRNOG00000012229
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
T
Expression
Biased expression in Lung (RPKM 9.3), Thymus (RPKM 6.6) and 4 other tissues See more
Orthologs

Genomic context

See Tbxt in Genome Data Viewer
Location:
1q12
Exon count:
12
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (52887067..52900691, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (54139554..54147385, complement)

Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene phosphodiesterase 10A Neighboring gene 60S ribosomal protein L23a pseudogene Neighboring gene similar to Multifunctional protein ADE2 Neighboring gene brachyury 2

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Pathways from BioSystems

  • Folic Acid Network, organism-specific biosystem (from WikiPathways)
    Folic Acid Network, organism-specific biosystemThe folic acid-centred micronutrient biological network. The most relevant biochemical processes related to folic acid in the context of metabolism, oxidation and inflammation are represented. Also, ...
  • Selenium Micronutrient Network, organism-specific biosystem (from WikiPathways)
    Selenium Micronutrient Network, organism-specific biosystemThe selenium-centred micronutrient biological network. The most relevant biochemical processes related to selenium in the context of metabolism, oxidation and inflammation are represented. Also, the ...

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
BMP signaling pathway IEA
Inferred from Electronic Annotation
more info
 
BMP signaling pathway ISO
Inferred from Sequence Orthology
more info
 
SMAD protein signal transduction IEA
Inferred from Electronic Annotation
more info
 
SMAD protein signal transduction ISO
Inferred from Sequence Orthology
more info
 
anatomical structure morphogenesis ISO
Inferred from Sequence Orthology
more info
 
anterior/posterior pattern specification ISO
Inferred from Sequence Orthology
more info
 
bone morphogenesis IEA
Inferred from Electronic Annotation
more info
 
bone morphogenesis ISO
Inferred from Sequence Orthology
more info
 
canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
canonical Wnt signaling pathway ISO
Inferred from Sequence Orthology
more info
 
cellular response to retinoic acid IEP
Inferred from Expression Pattern
more info
PubMed 
determination of heart left/right asymmetry IEA
Inferred from Electronic Annotation
more info
 
determination of heart left/right asymmetry ISO
Inferred from Sequence Orthology
more info
 
embryonic skeletal system development IEA
Inferred from Electronic Annotation
more info
 
embryonic skeletal system development ISO
Inferred from Sequence Orthology
more info
 
heart morphogenesis IEA
Inferred from Electronic Annotation
more info
 
heart morphogenesis ISO
Inferred from Sequence Orthology
more info
 
mesoderm development ISO
Inferred from Sequence Orthology
more info
 
mesoderm migration involved in gastrulation IEA
Inferred from Electronic Annotation
more info
 
mesoderm migration involved in gastrulation ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
neural plate morphogenesis IEA
Inferred from Electronic Annotation
more info
 
neural plate morphogenesis ISO
Inferred from Sequence Orthology
more info
 
neural tube closure IEA
Inferred from Electronic Annotation
more info
 
neural tube closure ISO
Inferred from Sequence Orthology
more info
 
notochord development ISO
Inferred from Sequence Orthology
more info
 
notochord formation IEA
Inferred from Electronic Annotation
more info
 
notochord formation ISO
Inferred from Sequence Orthology
more info
 
penetration of zona pellucida IEA
Inferred from Electronic Annotation
more info
 
penetration of zona pellucida ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cell proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell proliferation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation ISO
Inferred from Sequence Orthology
more info
 
post-anal tail morphogenesis IEA
Inferred from Electronic Annotation
more info
 
post-anal tail morphogenesis ISO
Inferred from Sequence Orthology
more info
 
regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
reproductive process ISO
Inferred from Sequence Orthology
more info
 
signal transduction involved in regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
signal transduction involved in regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
somitogenesis IEA
Inferred from Electronic Annotation
more info
 
somitogenesis ISO
Inferred from Sequence Orthology
more info
 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
vasculogenesis IEA
Inferred from Electronic Annotation
more info
 
vasculogenesis ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
chromatin ISO
Inferred from Sequence Orthology
more info
 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
nuclear chromatin IEA
Inferred from Electronic Annotation
more info
 
nuclear chromatin ISO
Inferred from Sequence Orthology
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
brachyury protein
Names
T brachyury transcription factor
brachyury homolog

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001106209.1NP_001099679.1  brachyury protein

    See identical proteins and their annotated locations for NP_001099679.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474059
    UniProtKB/TrEMBL
    D4A4W8
    Related
    ENSRNOP00000016471.2, ENSRNOT00000016471.3
    Conserved Domains (1) summary
    smart00425
    Location:42224
    TBOX; Domain first found in the mice T locus (Brachyury) protein

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005100.4 Reference Rnor_6.0 Primary Assembly

    Range
    52887067..52900691 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017588873.1XP_017444362.1  brachyury protein isoform X1

    Conserved Domains (1) summary
    smart00425
    Location:42224
    TBOX; Domain first found in the mice T locus (Brachyury) protein

Alternate Rn_Celera

Genomic

  1. AC_000069.1 Alternate Rn_Celera

    Range
    48061384..48069149 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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