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Tbx5 T-box transcription factor 5 [ Rattus norvegicus (Norway rat) ]

Gene ID: 304514, updated on 5-Mar-2024

Summary

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Official Symbol: Tbx5provided by RGD
Official Full Name: T-box transcription factor 5provided by RGD
Primary source: RGD:1305702
See related: Ensembl:ENSRNOG00000001399 AllianceGenome:RGD:1305702
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
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; DNA-binding transcription factor binding activity; and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in transdifferentiation. Located in nucleus. Used to study myocardial infarction. Human ortholog(s) of this gene implicated in Holt-Oram syndrome. Orthologous to human TBX5 (T-box transcription factor 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 79.6) and Lung (RPKM 69.1) See more
Orthologs: human mouse all
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Genomic context

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See Tbx5 in Genome Data Viewer

Location:: 12q16

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (42342926..42399723, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (36686344..36739253, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (42059688..42148226)

Chromosome 12 - NC_086030.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Transcription factor Tbx5 promotes cardiomyogenic differentiation of cardiac fibroblasts treated with 5-azacytidine.
Title: Transcription factor Tbx5 promotes cardiomyogenic differentiation of cardiac fibroblasts treated with 5-azacytidine.
The MicroRNA-10-5p regulates BMSCs differentiation into cardiomyocytes by binding to TBX5.
Title: MicroRNA-10-5p regulates differentiation of bone marrow mesenchymal stem cells into cardiomyocytes by targeting TBX5.
Tbx2, Tbx4 and Tbx5 are expressed throughout the mesenchyme of the developing lung, regulating the process of lung branching morphogenesis [12].
Title: Expression of T-box transcription factors 2, 4 and 5 is decreased in the branching airway mesenchyme of nitrofen-induced hypoplastic lungs.
miR-10a may inhibit cardiac hypertrophy via targeting Tbx5.
Title: microRNA-10a Targets T-box 5 to Inhibit the Development of Cardiac Hypertrophy.
exogenous expression of cardiac-specific transcription factors GATA4 and TBX5 enhance cardiomyogenic differentiation bone marrow mesenchymal stromal cells
Title: Transcription factors GATA4 and TBX5 promote cardiomyogenic differentiation of rat bone marrow mesenchymal stromal cells.
TBX5 and MEF2C physically associate through their DNA-binding domains to form a complex on the MYH6 promoter
Title: Physical interaction between TBX5 and MEF2C is required for early heart development.
Findings provide a good basis for further identification of TBX5-related transcription factors and protein-protein interaction studies among each other.
Title: Cloning of TBX5, a key gene during heart formation and its expression in rat embryonic heart.

Submit: New GeneRIF Correction

General gene information

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Markers

Tbx5 (e-PCR), detects polymorphism
- UniSTS:265754

Tbx5 (e-PCR), detects polymorphism
- UniSTS:528216

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	ISS Inferred from Sequence or Structural Similarity more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in animal organ development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within atrial septum development	ISO Inferred from Sequence Orthology more info
involved_in atrial septum morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within atrial septum morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in atrioventricular bundle cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in atrioventricular bundle cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in atrioventricular node cell development	IEA Inferred from Electronic Annotation more info
involved_in atrioventricular node cell development	ISO Inferred from Sequence Orthology more info
involved_in atrioventricular node cell fate commitment	IEA Inferred from Electronic Annotation more info
involved_in atrioventricular node cell fate commitment	ISO Inferred from Sequence Orthology more info
involved_in atrioventricular valve morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within atrioventricular valve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in bundle of His cell to Purkinje myocyte communication by electrical coupling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_positive_effect bundle of His cell to Purkinje myocyte communication by electrical coupling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bundle of His development	ISO Inferred from Sequence Orthology more info
involved_in bundle of His development	ISO Inferred from Sequence Orthology more info
involved_in cardiac left ventricle formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cardiac left ventricle formation	IEA Inferred from Electronic Annotation more info
involved_in cardiac left ventricle formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cardiac muscle cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in cardiac muscle cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in cardiac muscle cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of cardiac muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in cell fate specification	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell signaling	ISO Inferred from Sequence Orthology more info
involved_in cell-cell signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell-cell signaling involved in cardiac conduction	IEA Inferred from Electronic Annotation more info
acts_upstream_of_positive_effect cell-cell signaling involved in cardiac conduction	ISO Inferred from Sequence Orthology more info
involved_in embryonic forelimb morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic forelimb morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic forelimb morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic forelimb morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within embryonic limb morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic limb morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic limb morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in endocardial cushion development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within endocardial cushion development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within forelimb morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart development	ISO Inferred from Sequence Orthology more info
involved_in heart development	ISO Inferred from Sequence Orthology more info
involved_in heart development	ISS Inferred from Sequence or Structural Similarity more info
involved_in lung development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lung development	ISO Inferred from Sequence Orthology more info
involved_in morphogenesis of an epithelium	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within morphogenesis of an epithelium	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cardiac muscle cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cardiac muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cardiac muscle cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell migration	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in pattern specification process	IBA Inferred from Biological aspect of Ancestor more info
involved_in pattern specification process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within pattern specification process	ISO Inferred from Sequence Orthology more info
involved_in pericardium development	IEA Inferred from Electronic Annotation more info
involved_in pericardium development	ISO Inferred from Sequence Orthology more info
involved_in pericardium development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cardiac conduction	IEA Inferred from Electronic Annotation more info
acts_upstream_of positive regulation of cardiac conduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cardiac muscle cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of cardiac muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cardioblast differentiation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cardioblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cardioblast differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of gap junction assembly	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of gap junction assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of secondary heart field cardioblast proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of secondary heart field cardioblast proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of atrial cardiac muscle cell membrane depolarization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_positive_effect regulation of atrial cardiac muscle cell membrane depolarization	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to aldosterone	IEP Inferred from Expression Pattern more info	PubMed
involved_in sinoatrial node development	IEA Inferred from Electronic Annotation more info
involved_in sinoatrial node development	ISO Inferred from Sequence Orthology more info
involved_in transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transdifferentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ventricular cardiac muscle tissue development	ISO Inferred from Sequence Orthology more info
involved_in ventricular septum development	IEA Inferred from Electronic Annotation more info
involved_in ventricular septum development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of chromatin	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of protein-DNA complex	IEA Inferred from Electronic Annotation more info
part_of protein-DNA complex	ISO Inferred from Sequence Orthology more info
part_of protein-DNA complex	ISS Inferred from Sequence or Structural Similarity more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISS Inferred from Sequence or Structural Similarity more info
part_of transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: T-box transcription factor TBX5

Names: T-box 5; T-box protein 5

NCBI Reference Sequences (RefSeq)

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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)

NM_001009964.1 → NP_001009964.1 T-box transcription factor TBX5

See identical proteins and their annotated locations for NP_001009964.1

Status: PROVISIONAL

Source sequence(s)

AY859491

UniProtKB/Swiss-Prot

Q5I2P1

Related

ENSRNOP00000001893.4, ENSRNOT00000001893.6

Conserved Domains (1) summary

cd00182
Location:53 → 241

TBOX; T-box DNA binding domain of the T-box family of transcriptional regulators. The T-box family is an ancient group that appears to play a critical role in development in all animal species. These genes were uncovered on the basis of similarity to the DNA ...

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086030.1 Reference GRCr8

Range

42342926..42399723 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008769230.4 → XP_008767452.1 T-box transcription factor TBX5 isoform X1

See identical proteins and their annotated locations for XP_008767452.1

UniProtKB/TrEMBL

A6J1K2, G3V657

Conserved Domains (1) summary

cd20189
Location:54 → 238

T-box_TBX4_5-like; DNA-binding domain of T-box transcription factor 4 and 5, and related T-box proteins
XM_039089491.2 → XP_038945419.1 T-box transcription factor TBX5 isoform X1

UniProtKB/TrEMBL

A6J1K2, G3V657

Conserved Domains (1) summary

cd20189
Location:54 → 238

T-box_TBX4_5-like; DNA-binding domain of T-box transcription factor 4 and 5, and related T-box proteins
XM_017598339.3 → XP_017453828.1 T-box transcription factor TBX5 isoform X1

UniProtKB/TrEMBL

A6J1K2, G3V657

Conserved Domains (1) summary

cd20189
Location:54 → 238

T-box_TBX4_5-like; DNA-binding domain of T-box transcription factor 4 and 5, and related T-box proteins
XM_006249387.5 → XP_006249449.1 T-box transcription factor TBX5 isoform X1

See identical proteins and their annotated locations for XP_006249449.1

UniProtKB/TrEMBL

A6J1K2, G3V657

Conserved Domains (1) summary

cd20189
Location:54 → 238

T-box_TBX4_5-like; DNA-binding domain of T-box transcription factor 4 and 5, and related T-box proteins