Prox1 prospero homeobox 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Prox1provided by RGD
Official Full Name: prospero homeobox 1provided by RGD
Primary source: RGD:1306890
See related: EnsemblRapid:ENSRNOG00000003694 AllianceGenome:RGD:1306890
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
Summary: Predicted to enable several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and protein domain specific binding activity. Involved in liver development and response to nutrient levels. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus. Biomarker of status epilepticus. Orthologous to human PROX1 (prospero homeobox 1). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Liver (RPKM 201.0), Heart (RPKM 102.3) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q26

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (104196615..104251007, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (101669184..101719804, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (108382536..108444107)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 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?

miR-340-5p mediates the therapeutic effect of mesenchymal stem cells on corneal neovascularization.
Title: miR-340-5p mediates the therapeutic effect of mesenchymal stem cells on corneal neovascularization.
Prox1 is a critical transcription factor for the differentiation of myoblasts via bi-directional crosstalk with Notch1.
Title: The transcription factor Prox1 is essential for satellite cell differentiation and muscle fibre-type regulation.
Prox1 synergizes with the p50 of NF-kappaB to control VEGFR-3 expression.
Title: Inflammation induces lymphangiogenesis through up-regulation of VEGFR-3 mediated by NF-kappaB and Prox1.
Our studies suggest that Prox1 is a multifunctional regulator of liver morphogenesis and of hepatocyte function and commitment.
Title: Gene regulation by homeobox transcription factor Prox1 in murine hepatoblasts.
At embryonal stage of rat liver development (embryonal days 14-16) hepatoblasts were found to be Prox1(+)/Cytokeratin (CK) 19(+) and alpha-fetoprotein (AFP)(+), at this stage Prox1(-)/CK19(+)/AFP(-) small cells (early cholangiocytes?) were identified.
Title: Prospero-related homeobox 1 (Prox1) is a stable hepatocyte marker during liver development, injury and regeneration, and is absent from "oval cells".
Prox1 is a highly conserved transcription factor, expressed in hepatocytes from the earliest stages of development into adulthood and over-expressed in hepatoma cell lines.
Title: The homeobox transcription factor Prox1 is highly conserved in embryonic hepatoblasts and in adult and transformed hepatocytes, but is absent from bile duct epithelium.
Prox1 activity is both necessary and sufficient for progenitor-cell proliferation and cell-fate determination in the vertebrate retina
Title: Prox1 function controls progenitor cell proliferation and horizontal cell genesis in the mammalian retina.
Prox1 activity is both necessary and sufficient for progenitor-cell proliferation and cell-fate determination in the vertebrate retina.
Title: Prox1 function controls progenitor cell proliferation and horizontal cell genesis in the mammalian retina.
Prox1 is differentially localized during lens development.
Title: Prox1 is differentially localized during lens development.

Submit: New GeneRIF Correction

General gene information

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Markers

BG373964 (e-PCR)
- UniSTS:249348

D13Rat162 (e-PCR), detects polymorphism
- UniSTS:226538

Prox1 (e-PCR), detects polymorphism
- UniSTS:231407

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA binding domain binding	ISO Inferred from Sequence Orthology 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	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables LBD domain binding	ISO Inferred from Sequence Orthology more info
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 nuclear receptor binding	ISO Inferred from Sequence Orthology more info
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
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within acinar cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in aorta smooth muscle tissue morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in atrial cardiac muscle tissue morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within blood vessel endothelial cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in brain development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within branching involved in pancreas morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in cerebellar granule cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in dentate gyrus development	ISO Inferred from Sequence Orthology more info
involved_in embryonic retina morphogenesis in camera-type eye	ISO Inferred from Sequence Orthology more info
involved_in endocardium formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hepatocyte cell migration	ISO Inferred from Sequence Orthology more info
involved_in hepatocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hepatocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear development	ISO Inferred from Sequence Orthology more info
involved_in kidney development	ISO Inferred from Sequence Orthology more info
involved_in lens development in camera-type eye	ISO Inferred from Sequence Orthology more info
involved_in lens fiber cell morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in lens morphogenesis in camera-type eye	ISO Inferred from Sequence Orthology more info
involved_in lens placode formation involved in camera-type eye formation	ISO Inferred from Sequence Orthology more info
involved_in liver development	IEP Inferred from Expression Pattern more info	PubMed
involved_in liver development	ISO Inferred from Sequence Orthology more info
involved_in lung development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymph vessel development	ISO Inferred from Sequence Orthology more info
involved_in lymphangiogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymphatic endothelial cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in lymphatic endothelial cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in lymphatic endothelial cell fate commitment	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of bile acid biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of neuroblast 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
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of viral genome replication	ISO Inferred from Sequence Orthology more info
acts_upstream_of neuroblast proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron fate determination	ISO Inferred from Sequence Orthology more info
involved_in neuronal stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in pancreas development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cell cycle checkpoint	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cyclin-dependent protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cyclin-dependent protein serine/threonine kinase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of endothelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of endothelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of forebrain neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of heart growth	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neural precursor cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of sarcomere organization	ISO Inferred from Sequence Orthology more info
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
involved_in regulation of circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in skeletal muscle thin filament assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in venous blood vessel morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in ventricular cardiac muscle tissue morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in ventricular cardiac myofibril assembly	ISO Inferred from Sequence Orthology more info
involved_in ventricular septum morphogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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: prospero homeobox protein 1

Names: prospero-related homeobox 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_001429158.1 → NP_001416087.1 prospero homeobox protein 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

D3ZU00

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086031.1 Reference GRCr8

Range

104196615..104251007 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063272395.1 → XP_063128465.1 prospero homeobox protein 1 isoform X2
XM_063272394.1 → XP_063128464.1 prospero homeobox protein 1 isoform X1
XM_063272392.1 → XP_063128462.1 prospero homeobox protein 1 isoform X1
XM_063272391.1 → XP_063128461.1 prospero homeobox protein 1 isoform X1
XM_063272393.1 → XP_063128463.1 prospero homeobox protein 1 isoform X1
XM_063272396.1 → XP_063128466.1 prospero homeobox protein 1 isoform X3

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001107201.1: Suppressed sequence

Description

NM_001107201.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.