Pdx1 pancreatic and duodenal homeobox 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pdx1provided by RGD
Official Full Name: pancreatic and duodenal homeobox 1provided by RGD
Primary source: RGD:62387
See related: Ensembl:ENSRNOG00000046458 AllianceGenome:RGD:62387
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Idx1; Ipf1; Stf1
Summary: Enables DNA-binding transcription factor activity; promoter-specific chromatin binding activity; and sequence-specific DNA binding activity. Contributes to DNA-binding transcription factor activity, RNA polymerase II-specific. Involved in several processes, including animal organ development; detection of glucose; and regulation of transcription, DNA-templated. Located in nucleus. Colocalizes with cytoplasm. Biomarker of acute necrotizing pancreatitis; hyperglycemia; placental insufficiency; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in cerebral infarction; hyperglycemia; maturity-onset diabetes of the young type 4; pancreatic agenesis; and type 2 diabetes mellitus. Orthologous to human PDX1 (pancreatic and duodenal homeobox 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Low expression observed in reference dataset See more
Orthologs: human mouse all
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Genomic context

Location:: 12p11

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (12793957..12799156, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (7757865..7763064, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (9496044..9501211, complement)

Chromosome 12 - NC_086030.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

PIMT Controls Insulin Synthesis and Secretion through PDX1.
Title: PIMT Controls Insulin Synthesis and Secretion through PDX1.
Saturated fatty acids entrap PDX1 in stress granules and impede islet beta cell function.
Title: Saturated fatty acids entrap PDX1 in stress granules and impede islet beta cell function.
Tectorigenin enhances PDX1 expression and protects pancreatic beta-cells by activating ERK and reducing ER stress.
Title: Tectorigenin enhances PDX1 expression and protects pancreatic β-cells by activating ERK and reducing ER stress.
that exosomes induce the islet regeneration through pancreatic and duodenal homeobox 1 pathway
Title: Potential of stem cell-derived exosomes to regenerate β islets through Pdx-1 dependent mechanism in a rat model of type 1 diabetes.
GLP-1 analogue liraglutide restores the expression of PDX1 by inactivating Mst1.
Title: Liraglutide protects against glucolipotoxicity-induced RIN-m5F β-cell apoptosis through restoration of PDX1 expression.
PDX1 expression is maintained via the Erk pathway and protects islet beta-cells against glucotoxicity and lipotoxicity
Title: Hypericin maintians PDX1 expression via the Erk pathway and protects islet β-cells against glucotoxicity and lipotoxicity.
Explored whether and how the two factors pdx-1 and myocardin affected the differentiation of mesenchymal stem cells (MSCs) into insulin-producing cells. In this study, we investigated the process of transfecting myocardin and/or pdx-1 in MSCs in vitro. The results showed that MSCs were able to secrete insulin after cotransfection with myocardin and pdx-1.
Title: The Synergy of Two Factors on Insulin Expression.
Results found that Pdx-1 overexpression exerts its effects on islet cell replication via a noncell-autonomous mechanism involving induction of a secreted soluble factor or factors. Also, Inhbb is identified as one factor mediating the proliferative effect of Pdx-1.
Title: A Pdx-1-Regulated Soluble Factor Activates Rat and Human Islet Cell Proliferation.
Sphallerocarpus gracilis polysaccharide protected pancreatic beta-cells from alloxan damage by several possible mechanisms, including: (1) repairing free radical damage; (2) reducing the apoptosis of pancreatic beta-cells by inhibiting the activities of caspase-3 and bax, and enhancing the activity of bcl-2; (3) stimulating insulin secretion and upregulating the pancreatic and duodenal homeobox 1 gene
Title: Sphallerocarpus gracilis polysaccharide protects pancreatic β-cells via regulation of the bax/bcl-2, caspase-3, pdx-1 and insulin signalling pathways.
restoring proteins in the diet after birth in low protein offspring dramatically impairs glucose homeostasis in early adulthood, by altering Pdx1 expression and downstream-target genes increasing the risk to develop type 2 diabetes.
Title: Regulation of postnatal pancreatic Pdx1 and downstream target genes after gestational exposure to protein restriction in rats.

Submit: New GeneRIF Correction See all GeneRIFs (56)

General gene information

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Markers

Pdx1 (e-PCR), detects polymorphism
- UniSTS:158750

RH94684 (e-PCR)
- UniSTS:119931

Pdx1 (e-PCR), detects polymorphism
- UniSTS:464793

Pdx1 (e-PCR), detects polymorphism
- UniSTS:224153

RH94789 (e-PCR)
- UniSTS:120036

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	TAS Traceable Author Statement more info	PubMed
contributes_to DNA-binding transcription factor activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
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	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables promoter-specific chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in animal organ regeneration	IEP Inferred from Expression Pattern more info	PubMed
involved_in cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within digestive tract development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endocrine pancreas development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within enteroendocrine cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within exocrine pancreas development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glucose homeostasis	ISO Inferred from Sequence Orthology more info
involved_in glucose mediated signaling pathway	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within glucose metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of insulin secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within liver development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within morphogenesis of embryonic epithelium	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of type B pancreatic cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in pancreas development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within pancreas development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of insulin secretion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of insulin secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of insulin secretion	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of insulin secretion involved in cellular response to glucose stimulus	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of type B pancreatic cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in 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 regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in response to L-leucine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to alkaloid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to chlorate	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to cytokine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to fatty acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to glucocorticoid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to glucose	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to glucose	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to iron(II) ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to lipid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nicotine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to vitamin	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in smoothened signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in stem cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in stem cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transdifferentiation	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of type B pancreatic cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in type B pancreatic cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in type B pancreatic cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within type B pancreatic cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in type B pancreatic cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of type B pancreatic cell proliferation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: pancreas/duodenum homeobox protein 1

Names: IDX-1; IPF-1; Insulin promoter factor 1; STF-1; insulin promotor factor 1; islet/duodenum homeobox-1; pancreatic and duodenal homeobox gene 1; somatostatin transactivating factor 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.

mRNA and Protein(s)

NM_022852.4 → NP_074043.4 pancreas/duodenum homeobox protein 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000012

UniProtKB/Swiss-Prot

P52947

UniProtKB/TrEMBL

A6K1A7

Related

ENSRNOP00000066935.1, ENSRNOT00000071942.2

Conserved Domains (1) summary

pfam00046
Location:149 → 203

Homeobox; Homeobox domain