Ndp norrin cystine knot growth factor NDP [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ndpprovided by RGD
Full Name: norrin cystine knot growth factor NDPprovided by RGD
Primary source: RGD:1563968
See related: EnsemblRapid:ENSRNOG00000002960 AllianceGenome:RGD:1563968
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ndph; RGD1563968
Summary: Predicted to enable cytokine activity; frizzled binding activity; and protein homodimerization activity. Involved in decidualization. Predicted to be located in cell surface and extracellular space. Predicted to be active in collagen-containing extracellular matrix. Human ortholog(s) of this gene implicated in Norrie disease; X-linked exudative vitreoretinopathy 2; and retinopathy of prematurity. Orthologous to human NDP (norrin cystine knot growth factor NDP). [provided by Alliance of Genome Resources, Nov 2024]
Annotation information: Note: Ndp was annotated incorrectly on Rnor_6.0 (Annotation Release 105) but correctly on Rn_Celera. Annotation of Ndp on Rn_Celera is supported by synteny with human and mouse and this locus is instead annotated as LOC100909913 on Rnor_6.0. Additionally, the locus annotated as Ndp on Rnor_6.0 represents a duplicate placement of this locus and this annotation lacks support by the syntenic region in mouse and human. BLASTing Ndp NM_001108814.1 against the rat genome (Annotation Release 105) shows best hits to the locations where both Ndp and LOC100909913 are annotated on Rnor_6.0 (NC_005120.4, 100% identity at each location) and where Ndp is annotated on Rn_Celera (AC_000089.1, 100% identity). BLASTing LOC100909913 XM_003751998.3 against the rat genome (Annotation Release 105) shows best hits to the locations where both Ndp and LOC100909913 are annotated on Rnor_6.0 (NC_005120.4, 100% identity at each location) and where Ndp is annotated on Rn_Celera (AC_000089.1, 100% identity). 2-sequence BLAST of Ndp NM_001108814.1 against LOC100909913 XM_003751998.3 shows high sequence identity (100% coverage, 100% identity). 2-sequence BLAST of Ndp underlying component AC097257.7 against the LOC100909913 underlying component AABR07073515.1 (both on Rnor_6.0) shows high sequence identity (99%) across ~67 kb. [26 Mar 2015]
Expression: Biased expression in Brain (RPKM 62.0), Uterus (RPKM 30.3) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq11

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (8379569..8404019)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (5796487..5820934)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (6791090..6815586)

Chromosome X - NC_086039.1 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: 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?

Studied the influence of dendrobium nobile Lindley (DNL) extract and its bibenzyl component moscatilin on the expression of placental growth factor (PLGF) and Norrie disease protein (NDP) in hypoxia model in retinal cells. Found DNL and moscatilin are able to protect against retinal ischemic/hypoxic changes respectively by downregulating PLGF and upregulating NDP.
Title: Dendrobium nobile Lindley and its bibenzyl component moscatilin are able to protect retinal cells from ischemia/hypoxia by dowregulating placental growth factor and upregulating Norrie disease protein.
The endogenously expressed Lgr4 may act as an antagonist molecule that helps to fine-tune the R-spondin/norrin-mediated Lgr4-Wnt signaling during gonadal development.
Title: A naturally occurring Lgr4 splice variant encodes a soluble antagonist useful for demonstrating the gonadal roles of Lgr4 in mammals.
Norrin upregulation protected blood-brain barrier integrity and improved outcome after subarachnoid hemorrhage.
Title: Norrin protected blood-brain barrier via frizzled-4/β-catenin pathway after subarachnoid hemorrhage in rats.
Norrin might regulate the decidual reaction and the placental angiogenesis along with the survival and the differentiation of luminal and glandular epithelial and decidual cells in rats.
Title: Norrin immunolocalization and its possible functions in rat endometrium during the estrus cycle and early pregnancy.
Norrin has pronounced neuroprotective properties on retinal neurons. The effects of Norrin involve activation of Wnt/beta-catenin signaling and subsequent induction of neurotrophic growth factors in Muller cells.
Title: Norrin mediates neuroprotective effects on retinal ganglion cells via activation of the Wnt/beta-catenin signaling pathway and the induction of neuroprotective growth factors in Muller cells.

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cytokine activity	IBA Inferred from Biological aspect of Ancestor more info
enables cytokine activity	ISO Inferred from Sequence Orthology more info
enables frizzled binding	IBA Inferred from Biological aspect of Ancestor more info
enables frizzled binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in Norrin signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in Norrin signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within action potential	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within angiogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within blood vessel remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to hypoxia	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cone retinal bipolar cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in decidualization	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within dendrite development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within dendritic spine development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endothelial cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of blood-brain barrier	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of blood-retinal barrier	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within exploration behavior	ISO Inferred from Sequence Orthology more info
involved_in extracellular matrix-cell signaling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glutathione metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glycine metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inflammatory response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lens development in camera-type eye	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within microglia differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within microglial cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mitotic cell cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural retina development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within optic nerve development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within placenta development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein phosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein targeting to lysosome	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein ubiquitination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within re-entry into mitotic cell cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to axon injury	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to hypoxia	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina blood vessel maintenance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina development in camera-type eye	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina layer formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina morphogenesis in camera-type eye	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina vasculature development in camera-type eye	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina vasculature morphogenesis in camera-type eye	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retinal blood vessel morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retinal ganglion cell axon guidance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retinal pigment epithelium development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retinal rod cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within serine family amino acid metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within smoothened signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within tricarboxylic acid cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ubiquitin-dependent endocytosis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell surface	ISO Inferred from Sequence Orthology more info
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in collagen-containing extracellular matrix	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: norrin

Names: NDP, norrin cystine knot growth factor; Norrie disease (pseudoglioma); Norrie disease homolog; norrin-like

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.