pdx1 pancreatic and duodenal homeobox 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: pdx1provided by ZNC
Official Full Name: pancreatic and duodenal homeobox 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-122
See related: Ensembl:ENSDARG00000002779 AllianceGenome:ZFIN:ZDB-GENE-990415-122
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: ipf1; pdx-1; zgc:100874
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including camera-type eye photoreceptor cell differentiation; determination of left/right symmetry; and photoreceptor cell maintenance. Predicted to be active in nucleus. Is expressed in several structures, including digestive system; endoderm; intestinal rod; liver primordium; and somite. Used to study diabetes mellitus; diabetic retinopathy; and hyperglycemia. Human ortholog(s) of this gene implicated in cerebral infarction; hyperglycemia; maturity-onset diabetes of the young type 4; pancreatic agenesis 1; and type 2 diabetes mellitus. Orthologous to human PDX1 (pancreatic and duodenal homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 24

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	24	NC_007135.7 (21684195..21686703)
105	previous assembly	GRCz10 (GCF_000002035.5)	24	NC_007135.6 (21539021..21541529)

Chromosome 24 - NC_007135.7 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?

Hhex, Cdx1b, Pdx1, and Sox9b form a genetic network governing the patterning and morphogenesis of the HPD and digestive tract systems in zebrafish.
Title: Zebrafish hhex-null mutant develops an intrahepatic intestinal tube due to de-repression of cdx1b and pdx1.
Diabetic pdx1-mutant zebrafish show conserved responses to nutrient overload and anti-glycemic treatment
Title: Diabetic pdx1-mutant zebrafish show conserved responses to nutrient overload and anti-glycemic treatment.
A pdx1-dependent progenitor population essential for the formation of duct-associated, second wave endocrine cells, is demonstrated.
Title: Requirement for Pdx1 in specification of latent endocrine progenitors in zebrafish.
Pdx-1 plays multiple roles in maintaining the phenotype of the islet during embryogenesis.
Title: siRNA specific to Pdx-1 disturbed the formation of the islet in early zebrafish embryos.

Submit: New GeneRIF Correction

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 DNA-binding transcription factor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within determination of digestive tract left/right asymmetry	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within determination of liver left/right asymmetry	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within determination of pancreatic left/right asymmetry	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within endocrine pancreas development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within endocrine pancreas development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within eye photoreceptor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glucose homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pancreas development	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within photoreceptor cell maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pronephros development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within reactive gliosis	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 transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within retinal cone cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal rod cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in type B pancreatic cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within visual behavior	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: pancreas/duodenum homeobox protein 1

Names: insulin promoter factor 1, homeodomain transcription factor; pancreatic and duodenal homeobox gene 1

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.