Human Gene NDP (ENST00000642620.1_7) from GENCODE V47lift37
  Description: norrin cystine knot growth factor NDP (from RefSeq NM_000266.4)
Gencode Transcript: ENST00000642620.1_7
Gencode Gene: ENSG00000124479.11_13
Transcript (Including UTRs)
   Position: hg19 chrX:43,808,022-43,832,636 Size: 24,615 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chrX:43,809,045-43,817,891 Size: 8,847 Coding Exon Count: 2 

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Gene AllelesMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:43,808,022-43,832,636)mRNA (may differ from genome)Protein (133 aa)
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-  Comments and Description Text from UniProtKB
  ID: NDP_HUMAN
DESCRIPTION: RecName: Full=Norrin; AltName: Full=Norrie disease protein; AltName: Full=X-linked exudative vitreoretinopathy 2 protein; Flags: Precursor;
FUNCTION: Activates the canonical Wnt signaling pathway through FZD4 and LRP5 coreceptor. Plays a central role in retinal vascularization by acting as a ligand for FZD4 that signals via stabilizing beta-catenin (CTNNB1) and activating LEF/TCF-mediated transcriptional programs. Acts in concert with TSPAN12 to activate FZD4 independently of the Wnt-dependent activation of FZD4, suggesting the existence of a Wnt-independent signaling that also promote accumulation the beta-catenin (CTNNB1). May be involved in a pathway that regulates neural cell differentiation and proliferation. Possible role in neuroectodermal cell-cell interaction.
SUBUNIT: Interacts with FZD4. Component of a complex, at least composed of TSPAN12, FZD4 and norrin (NDP) (By similarity). Oligomer; disulfide-linked.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Expressed in the outer nuclear, inner nuclear and ganglion cell layers of the retina, and in fetal and adult brain.
DISEASE: Defects in NDP are the cause of Norrie disease (ND) [MIM:310600]; also known as atrophia bulborum hereditaria or Episkopi blindness. ND is a recessive disorder characterized by very early childhood blindness due to degenerative and proliferative changes of the neuroretina. Approximately 50% of patients show some form of progressive mental disorder, often with psychotic features, and about one-third of patients develop sensorineural deafness in the second decade. In addition, some patients have more complex phenotypes, including growth failure and seizure.
DISEASE: Defects in NDP are the cause of vitreoretinopathy exudative type 2 (EVR2) [MIM:305390]. EVR2 is a disorder of the retinal vasculature characterized by an abrupt cessation of growth of peripheral capillaries, leading to an avascular peripheral retina. This may lead to compensatory retinal neovascularization, which is thought to be induced by hypoxia from the initial avascular insult. New vessels are prone to leakage and rupture causing exudates and bleeding, followed by scarring, retinal detachment and blindness. Clinical features can be highly variable, even within the same family. Patients with mild forms of the disease are asymptomatic, and their only disease related abnormality is an arc of avascular retina in the extreme temporal periphery.
SIMILARITY: Contains 1 CTCK (C-terminal cystine knot-like) domain.
WEB RESOURCE: Name=Mutations of the NDP gene; Note=Retina International's Scientific Newsletter; URL="http://www.retina-international.org/files/sci-news/ndgmut.htm";
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/NDP";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
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To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: NDP
Diseases sorted by gene-association score: norrie disease* (1770), exudative vitreoretinopathy 2, x-linked* (1219), x-linked familial exudative vitreoretinopathy* (419), exudative vitreoretinopathy* (288), persistent hyperplastic primary vitreous* (202), ndp-related retinopathies* (100), coats disease* (42), retinal vascular disease (19), exudative vitreoretinopathy 1* (19), retinal telangiectasia (12), osteoporosis-pseudoglioma syndrome (12), ethylmalonic encephalopathy (10), telangiectasis (10), leukocoria (9), retinal detachment (7), anophthalmia/microphthalmia (6), x-linked disease (4), retinal disease (2)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -88.00294-0.299 Picture PostScript Text
3' UTR -273.901023-0.268 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR006208 - Cys_knot
IPR006207 - Cys_knot_C
IPR003064 - Norrie_dis

Pfam Domains:
PF00007 - Cystine-knot domain
PF03045 - DAN domain

SCOP Domains:
57501 - Cystine-knot cytokines

ModBase Predicted Comparative 3D Structure on Q00604
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005109 frizzled binding
GO:0005125 cytokine activity
GO:0005515 protein binding
GO:0008083 growth factor activity
GO:0042803 protein homodimerization activity

Biological Process:
GO:0001890 placenta development
GO:0007033 vacuole organization
GO:0007165 signal transduction
GO:0007267 cell-cell signaling
GO:0007399 nervous system development
GO:0007601 visual perception
GO:0007605 sensory perception of sound
GO:0008283 cell proliferation
GO:0010469 regulation of receptor activity
GO:0016055 Wnt signaling pathway
GO:0035426 extracellular matrix-cell signaling
GO:0045893 positive regulation of transcription, DNA-templated
GO:0050896 response to stimulus
GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity
GO:0060070 canonical Wnt signaling pathway
GO:0061299 retina vasculature morphogenesis in camera-type eye

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0009986 cell surface
GO:0031012 extracellular matrix


-  Descriptions from all associated GenBank mRNAs
  BC029901 - Homo sapiens Norrie disease (pseudoglioma), mRNA (cDNA clone MGC:34503 IMAGE:5179578), complete cds.
X65724 - H.sapiens DNA for ORF1 and ORF2 from chromosome X.
X65882 - H.sapiens mRNA NDP.
JD165931 - Sequence 146955 from Patent EP1572962.
JD057619 - Sequence 38643 from Patent EP1572962.
JD082323 - Sequence 63347 from Patent EP1572962.
JD345391 - Sequence 326415 from Patent EP1572962.
JD391380 - Sequence 372404 from Patent EP1572962.
JD357668 - Sequence 338692 from Patent EP1572962.
JD417497 - Sequence 398521 from Patent EP1572962.
JD138696 - Sequence 119720 from Patent EP1572962.
JD460791 - Sequence 441815 from Patent EP1572962.
AK313409 - Homo sapiens cDNA, FLJ93945, Homo sapiens Norrie disease (pseudoglioma) (NDP), mRNA.
KJ891669 - Synthetic construct Homo sapiens clone ccsbBroadEn_01063 NDP gene, encodes complete protein.
KR710786 - Synthetic construct Homo sapiens clone CCSBHm_00017092 NDP (NDP) mRNA, encodes complete protein.
KR710787 - Synthetic construct Homo sapiens clone CCSBHm_00017103 NDP (NDP) mRNA, encodes complete protein.
KR710788 - Synthetic construct Homo sapiens clone CCSBHm_00017132 NDP (NDP) mRNA, encodes complete protein.
KR710789 - Synthetic construct Homo sapiens clone CCSBHm_00017152 NDP (NDP) mRNA, encodes complete protein.
AB528756 - Synthetic construct DNA, clone: pF1KE0168, Homo sapiens NDP gene for Norrie disease, without stop codon, in Flexi system.
AM392592 - Synthetic construct Homo sapiens clone IMAGE:100002129 for hypothetical protein (NDP gene).
JD547440 - Sequence 528464 from Patent EP1572962.
JD566143 - Sequence 547167 from Patent EP1572962.
JD215396 - Sequence 196420 from Patent EP1572962.
JD513791 - Sequence 494815 from Patent EP1572962.
JD063554 - Sequence 44578 from Patent EP1572962.
JD066369 - Sequence 47393 from Patent EP1572962.
JD334073 - Sequence 315097 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R8K6, EVR2, NDP_HUMAN, NM_000266, Q00604, Q5JYH5, uc328iwr.1, uc328iwr.2
UCSC ID: ENST00000642620.1_7
RefSeq Accession: NM_000266.4
Protein: Q00604 (aka NDP_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene NDP:
norrie (NDP-Related Retinopathies)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.