cdx4 caudal type homeobox 4 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: cdx4provided by ZNC
Official Full Name: caudal type homeobox 4provided by ZNC
Primary source: ZFIN:ZDB-GENE-980526-330
See related: Ensembl:ENSDARG00000036292 AllianceGenome:ZFIN:ZDB-GENE-980526-330
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: kgg; cad1; cdx1; cb546; kugelig; CHUNP6923; id:ibd1215; id:ibd2812; id:ibd5107
Summary: Enables DNA binding activity and chromatin binding activity. Acts upstream of or within several processes, including anterior/posterior pattern specification; embryonic foregut morphogenesis; and post-anal tail morphogenesis. Predicted to be active in nucleus. Is expressed in several structures, including digestive system; endoderm; germ ring; mesoderm; and presumptive mesoderm. Orthologous to human CDX4 (caudal type homeobox 4). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (32961703..32965169, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (32621389..32624844, complement)

Chromosome 14 - NC_007125.7 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 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?

Zebrafish Cdx4 regulates neural crest cell specification and migratory behaviors in the posterior body.
Title: Zebrafish Cdx4 regulates neural crest cell specification and migratory behaviors in the posterior body.
Cdx4 differentially regulates the transcription of head, trunk and tail hox genes. In the trunk, Cdx4 conveys spatial positional information to axial tissues by regulating the time of hox gene transcriptional activation during the initiation phase
Title: Spatiotemporal analysis of zebrafish hox gene regulation by Cdx4.
interactions between Cyp26a1 and Cdx4 modulate RA levels along the AP axis to segregate the posterior neural plate into the hindbrain and spinal cord territories
Title: CDX4 and retinoic acid interact to position the hindbrain-spinal cord transition.
Data suggest that cdx proteins affect cardiogenesis by regulating the formation of cardiogenic mesoderm.
Title: Interactions between Cdx genes and retinoic acid modulate early cardiogenesis.
In cdx4-deficient embryos treated with retinoic acid, ectopic beta-cells are located well posterior to the normal pancreatic domain.
Title: Cdx4 is required in the endoderm to localize the pancreas and limit beta-cell number.
Repression of the hindbrain developmental program by Cdx factors is required for the specification of the vertebrate spinal cord.
Title: Repression of the hindbrain developmental program by Cdx factors is required for the specification of the vertebrate spinal cord.
The expression and function of cdx4 are reported.
Title: The caudal-related homeobox genes cdx1a and cdx4 act redundantly to regulate hox gene expression and the formation of putative hematopoietic stem cells during zebrafish embryogenesis.
caudal-related gene cdx4 is the locus mutated in kugelig (kgg), a zebrafish mutant with an early defect in haematopoiesis that is associated with abnormal anteroposterior patterning and aberrant hox gene expression
Title: cdx4 mutants fail to specify blood progenitors and can be rescued by multiple hox genes.
These data indicate that the cdx genes mediate Wnt signaling and play essential roles in the morphogenesis of the posterior body in zebrafish. (Caudal AND wnt)
Title: Interaction of Wnt and caudal-related genes in zebrafish posterior body formation.

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General gene information

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Markers

cad1 (e-PCR)
- UniSTS:205384

cad1 (e-PCR)
- UniSTS:238185

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in anterior/posterior axis specification	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within anterior/posterior axis specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within anterior/posterior pattern specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within anterior/posterior pattern specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in digestive tract development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within embryonic foregut morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic pattern specification	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within heart formation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hemopoiesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within hindbrain-spinal cord boundary formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pancreas development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within pancreas development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pancreatic D cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within post-anal tail morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pronephros development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within pronephros 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 gene expression	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 retinoic acid receptor signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within rostrocaudal neural tube patterning	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within somitogenesis	IGI Inferred from Genetic Interaction 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: homeobox protein CDX-4

Names: caudal homeobox 1; caudal type homeo box transcription factor 4

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.