foxj1a forkhead box J1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: foxj1aprovided by ZNC
Official Full Name: forkhead box J1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-060929-1178
See related: Ensembl:ENSDARG00000101919 AllianceGenome:ZFIN:ZDB-GENE-060929-1178
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: foxj1; id:ibd5134; zgc:153050
Summary: Enables sequence-specific DNA binding activity. Acts upstream of or within several processes, including central canal development; cerebrospinal fluid circulation; and determination of heart left/right asymmetry. Predicted to be active in nucleus. Is expressed in several structures, including embryonic structure; mesoderm; nervous system; neural tube; and renal system. Human ortholog(s) of this gene implicated in primary ciliary dyskinesia 43. Orthologous to human FOXJ1 (forkhead box J1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 3

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	3	NC_007114.7 (60716912..60733252)
105	previous assembly	GRCz10 (GCF_000002035.5)	3	NC_007114.6 (60637108..60653669)

Chromosome 3 - NC_007114.7 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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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?

The authors concluded that, independently from variations in foxj1a mRNA levels, all cilia seem to acquire a motile ultrastructure. However, Notch signalling modulates the final number of functionally moving cilia early in the Kupffer's Vesicle precursors, via a mechanism that involves the activity of Her12, a transcription repressor so far only involved in somitogenesis.
Title: Notch/Her12 signalling modulates, motile/immotile cilia ratio downstream of Foxj1a in zebrafish left-right organizer.
Rer1p depletion reduced ciliary length and function by increasing gamma-secretase complex assembly and activity and, consequently, enhancing Notch signaling as well as reducing Foxj1a expression.
Title: Rer1p maintains ciliary length and signaling by regulating γ-secretase activity and Foxj1a levels.
all of these findings provide the first evolutionary perspective into the transcriptional control of motile ciliogenesis and allow us to propose a conserved FoxJ1-regulated mechanism for motile cilia biogenesis back to the origin of the metazoans.
Title: Evolutionarily ancient association of the FoxJ1 transcription factor with the motile ciliogenic program.
It was shown that Wnt3a-Wnt8a/beta-catenin signaling directly regulates ciliogenic transcription factor foxj1a expression and ciliogenesis in zebrafish Kupffer's vesicle.
Title: Wnt/β-catenin signaling directly regulates Foxj1 expression and ciliogenesis in zebrafish Kupffer's vesicle.
activation of a Foxj1 transcriptional network of ciliogenic genes is an evolutionarily conserved response to multiple forms of tissue damage
Title: The zebrafish foxj1a transcription factor regulates cilia function in response to injury and epithelial stretch.
foxj1a regulates asymmetric development through dorsal forerunner cells in a cell-autonomous fashion but foxj1b functions indirectly.
Title: Both foxj1a and foxj1b are implicated in left-right asymmetric development in zebrafish embryos.
Isolation and expression analysis of foxj1 in zebrafish embryos are reported.
Title: Isolation and expression analysis of foxj1 and foxj1.2 in zebrafish embryos.
Study shows that Foxj1a activates a constellation of genes essential for motile cilia formation and function, and that its activity is sufficient for ectopic development of cilia that resemble motile cilia.
Title: Foxj1 transcription factors are master regulators of the motile ciliogenic program.
Study shows that the cilia that underlie left-right patterning on the Xenopus gastrocoel roof plate (GRP) and zebrafish Kupffer's vesicle are severely shortened or fail to form in Foxj1 morphants.
Title: The forkhead protein Foxj1 specifies node-like cilia in Xenopus and zebrafish embryos.

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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	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 RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within_positive_effect Kupffer's vesicle development	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within cell projection organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within central canal development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cerebrospinal fluid circulation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cilium assembly	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within cilium assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of determination of left/right symmetry	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within determination of left/right symmetry	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of determination of left/right symmetry	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within epithelial cilium movement involved in extracellular fluid movement	IMP Inferred from Mutant Phenotype 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	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 cilium beat frequency involved in ciliary motility	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 response to wounding	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: forkhead box protein J1-A

Names: forkhead box transcription factor J1

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.