tbx5a T-box transcription factor 5a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: tbx5aprovided by ZNC
Official Full Name: T-box transcription factor 5aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-991124-7
See related: Ensembl:ENSDARG00000024894 AllianceGenome:ZFIN:ZDB-GENE-991124-7
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: hst; tbx5; tbx5.1
Summary: Enables DNA-binding transcription factor activity; RNA polymerase II-specific DNA-binding transcription factor binding activity; and sequence-specific DNA binding activity. Acts upstream of or within several processes, including cardiac muscle tissue regeneration; heart development; and limb development. Located in actin cytoskeleton and nucleus. Is expressed in several structures, including eye; immature eye; mesoderm; pectoral fin; and pericardial region. Used to study Holt-Oram syndrome. 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]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 5

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (72264163..72303894, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (71474708..71505188, complement)

Chromosome 5 - NC_007116.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Tbx5a and Tbx5b paralogues act in combination to control separate vectors of migration in the fin field of zebrafish.
Title: Tbx5a and Tbx5b paralogues act in combination to control separate vectors of migration in the fin field of zebrafish.
Twisting of the zebrafish heart tube during cardiac looping is a tbx5-dependent and tissue-intrinsic process.
Title: Twisting of the zebrafish heart tube during cardiac looping is a tbx5-dependent and tissue-intrinsic process.
Anterior lateral plate mesoderm gives rise to multiple tissues and requires tbx5a function in left-right asymmetry, migration dynamics, and cell specification of late-addition cardiac cells.
Title: Anterior lateral plate mesoderm gives rise to multiple tissues and requires tbx5a function in left-right asymmetry, migration dynamics, and cell specification of late-addition cardiac cells.
These studies highlight the importance of KAT2A and KAT2B modulation of TBX5 and their impact on heart and limb development.
Title: Acetylation of TBX5 by KAT2B and KAT2A regulates heart and limb development.
IGF-I has an anti-apoptotic protective effect in zebrafish embryos with tbx5 deficiency.
Title: Anti-apoptotic effects of IGF-I on mortality and dysmorphogenesis in tbx5-deficient zebrafish embryos.
loss of tbx5a function significantly impairs the ability of zebrafish hearts to regenerate after ventricular resection, indicating that Tbx5a plays an essential role in the transcriptional program of heart regeneration.
Title: Analysis of a conditional gene trap reveals that tbx5a is required for heart regeneration in zebrafish.
Tbx5a-expressing lineage demonstrates cardiomyocyte plasticity during zebrafish heart regeneration.
Title: Tbx5a lineage tracing shows cardiomyocyte plasticity during zebrafish heart regeneration.
Regulatory evolution of Tbx5 and the origin of paired appendages, such as fins, is presented.
Title: Regulatory evolution of Tbx5 and the origin of paired appendages.
a mesodermal Fgf24 convergence cue controlled by Tbx5a underlies this asymmetric convergent motility.
Title: Asymmetric cell convergence-driven zebrafish fin bud initiation and pre-pattern requires Tbx5a control of a mesenchymal Fgf signal.
Results show that cul4a but not cul4b is required for the expression of tbx5a, an essential transcription factor in heart and limb development.
Title: Zebrafish cul4a, but not cul4b, modulates cardiac and forelimb development by upregulating tbx5a expression.

Submit: New GeneRIF Correction See all GeneRIFs (24)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation 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	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	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within animal organ morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within atrial ventricular junction remodeling	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within atrioventricular canal development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within atrioventricular valve formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cardiac chamber morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cardiac left ventricle formation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cardiac muscle cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within cardiac muscle tissue regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell fate specification	IBA Inferred from Biological aspect of Ancestor more info
involved_in embryo development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic heart tube development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic heart tube morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic heart tube morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic pectoral fin morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in epithelium development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within heart development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart jogging	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart jogging	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart looping	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart looping	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within limb bud formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within optic nerve development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in pattern specification process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within pectoral fin development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pectoral fin morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pericardium morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within proepicardium development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within retina morphogenesis in camera-type eye	IGI Inferred from Genetic Interaction more info	PubMed
NOT acts_upstream_of_or_within swim bladder development	IGI Inferred from Genetic Interaction more info	PubMed
NOT acts_upstream_of_or_within swim bladder development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in actin cytoskeleton	IPI Inferred from Physical Interaction more info	PubMed
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	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	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of protein-DNA complex	ISS Inferred from Sequence or Structural Similarity more info
part_of protein-containing complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: T-box transcription factor TBX5-A

Names: T-box 5a; T-box gene 5; T-box gene 5.1; T-box protein 5; T-box transcription factor TBX5; heartstrings

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_001313682.1 → NP_001300611.1 T-box transcription factor TBX5-A

Status: VALIDATED

Source sequence(s)

CU181811

UniProtKB/Swiss-Prot

B8JKS5, Q9IAK8, Q9PTK3, Q9PUS7

UniProtKB/TrEMBL

A0A8M9QDI3

Related

ENSDARP00000033053.5, ENSDART00000037691.6

Conserved Domains (1) summary

cd00182
Location:52 → 240

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: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007116.7 Reference GRCz11 Primary Assembly

Range

72264163..72303894 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021475995.1 → XP_021331670.1 T-box transcription factor TBX5-A isoform X1

UniProtKB/Swiss-Prot

B8JKS5, Q9IAK8, Q9PTK3, Q9PUS7

UniProtKB/TrEMBL

A0A8M9QDI3

Conserved Domains (1) summary

cd00182
Location:52 → 240

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 ...

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_130915.1: Suppressed sequence

Description

NM_130915.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.