pbx4 pre-B-cell leukemia transcription factor 4 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: pbx4provided by ZNC
Official Full Name: pre-B-cell leukemia transcription factor 4provided by ZNC
Primary source: ZFIN:ZDB-GENE-000201-18
See related: Ensembl:ENSDARG00000052150 AllianceGenome:ZFIN:ZDB-GENE-000201-18
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: lzr; PBXA; pbxx; fb77e11; lazarus; wu:fb77e11
Summary: Enables DNA binding activity and DNA-binding transcription factor activity. Involved in nervous system development and positive regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including embryonic morphogenesis; heart development; and nervous system development. Located in nucleus. Orthologous to human PBX4 (PBX homeobox 4). [provided by Alliance of Genome Resources, Dec 2024]
Annotation information: Annotation category: partial on reference assembly
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 3

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	3	NC_007114.7 (52999962..53074922)
105	previous assembly	GRCz10 (GCF_000002035.5)	3	NC_007114.6 (52745299..52820259)

Chromosome 3 - NC_007114.7 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: 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?

Pbx4 limits heart size and fosters arch artery formation by partitioning second heart field progenitors and restricting proliferation.
Title: Pbx4 limits heart size and fosters arch artery formation by partitioning second heart field progenitors and restricting proliferation.
A loss of Pbx2 and Pbx4 causes a significant reduction of hindbrain and spinal cord expression of lbx1 genes.
Title: Pbx-dependent regulation of lbx gene expression in developing zebrafish embryos.
These data define a novel role for Pbx4 in patterning the vertebrate retina and tectum in a manner required for proper retinal ganglion cell axon outgrowth
Title: Pbx homeodomain proteins pattern both the zebrafish retina and tectum.
eliminating zebrafish Lzr/Pbx4 and Pbx2 function prevents hindbrain segmentation and causes a wholesale anterior homeotic transformation of r2-r6, to r1 identity
Title: Eliminating zebrafish pbx proteins reveals a hindbrain ground state.
Meis3 and pbx4 regulate shh expression in anterior endoderm, thereby influencing patterning and growth of the foregut.
Title: TALE-family homeodomain proteins regulate endodermal sonic hedgehog expression and pattern the anterior endoderm.

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General gene information

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Markers

G46464 (e-PCR)
- UniSTS:107266

fd07d09.x1 (e-PCR)
- UniSTS:204077

G39404 (e-PCR)
- UniSTS:7044

fb77e11.x1 (e-PCR)
- UniSTS:191376

fb77e11 (e-PCR)
- UniSTS:187540

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay 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	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in animal organ morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in axon guidance	IDA Inferred from Direct Assay more info
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within brain development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within bulbus arteriosus development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cardiac muscle cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic cranial skeleton morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic organ development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within embryonic retina morphogenesis in camera-type eye	IGI Inferred from Genetic Interaction more info	PubMed
involved_in eye development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within heart development	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
involved_in hindbrain development	IGI Inferred from Genetic Interaction more info
acts_upstream_of_or_within midbrain development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neural crest cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within neuron development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron differentiation	IMP Inferred from Mutant Phenotype more info
involved_in neuron migration	IDA Inferred from Direct Assay more info
acts_upstream_of_or_within pancreas development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	IGI Inferred from Genetic Interaction more info
involved_in positive regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info
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
involved_in regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within skeletal muscle fiber development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within ventricular cardiac muscle cell development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IDA Inferred from Direct Assay more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	IC Inferred by Curator more info

General protein information

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Preferred Names: pre-B-cell leukemia transcription factor 4

Names: pre-B-cell leukemia transcription factor x

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_131447.1 → NP_571522.1 pre-B-cell leukemia transcription factor 4

See identical proteins and their annotated locations for NP_571522.1

Status: PROVISIONAL

Source sequence(s)

AF162696

UniProtKB/TrEMBL

B3DFM2, F6NN83, Q9PW77

Related

ENSDARP00000095454.3, ENSDART00000104683.6

Conserved Domains (2) summary

cd00086
Location:232 → 292

homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.

pfam03792
Location:39 → 230

PBC; PBC domain