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Aliases for NDN Gene

Aliases for NDN Gene

  • Necdin, MAGE Family Member 2 3 5
  • Necdin, Melanoma Antigen (MAGE) Family Member 2 3
  • Prader-Willi Syndrome Chromosome Region 2 3
  • Necdin Homolog (Mouse) 2
  • Necdin-Like Protein 3
  • Necdin Homolog 3
  • HsT16328 3
  • PWCR 3

External Ids for NDN Gene

Previous GeneCards Identifiers for NDN Gene

  • GC15M021066
  • GC15M016820
  • GC15M021348
  • GC15M021477
  • GC15M021481
  • GC15M023931
  • GC15M002066

Summaries for NDN Gene

Entrez Gene Summary for NDN Gene

  • This intronless gene is located in the Prader-Willi syndrome deletion region. It is an imprinted gene and is expressed exclusively from the paternal allele. Studies in mouse suggest that the protein encoded by this gene may suppress growth in postmitotic neurons. [provided by RefSeq, Jul 2008]

GeneCards Summary for NDN Gene

NDN (Necdin, MAGE Family Member) is a Protein Coding gene. Diseases associated with NDN include prader-willi syndrome and prader-willi syndrome due to maternal uniparental disomy of chromosome 15. Among its related pathways are p75(NTR)-mediated signaling and Adipogenesis. GO annotations related to this gene include gamma-tubulin binding. An important paralog of this gene is MAGEC3.

UniProtKB/Swiss-Prot for NDN Gene

  • Growth suppressor that facilitates the entry of the cell into cell cycle arrest. Functionally similar to the retinoblastoma protein it binds to and represses the activity of cell-cycle-promoting proteins such as SV40 large T antigen, adenovirus E1A, and the transcription factor E2F. Necdin also interacts with p53 and works in an additive manner to inhibit cell growth. Functions also as transcription factor and binds directly to specific guanosine-rich DNA sequences (By similarity).

Gene Wiki entry for NDN Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NDN Gene

Genomics for NDN Gene

Regulatory Elements for NDN Gene

Promoters for NDN Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around NDN on UCSC Golden Path with GeneCards custom track

Genomic Location for NDN Gene

Chromosome:
15
Start:
23,685,400 bp from pter
End:
23,687,330 bp from pter
Size:
1,931 bases
Orientation:
Minus strand

Genomic View for NDN Gene

Genes around NDN on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NDN Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NDN Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NDN Gene

Proteins for NDN Gene

  • Protein details for NDN Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99608-NECD_HUMAN
    Recommended name:
    Necdin
    Protein Accession:
    Q99608
    Secondary Accessions:
    • B2R6Z5

    Protein attributes for NDN Gene

    Size:
    321 amino acids
    Molecular mass:
    36086 Da
    Quaternary structure:
    • Binds to the transactivation domains of E2F1 and p53. Binds also SV40 large T antigen and adenovirus E1A. Interacts with nucleobindin 1 and 2 (By similarity).
    Miscellaneous:
    • Located in the Prader-Willi syndrome (PWS) chromosome region. Prader-Willi syndrome is a contiguous gene syndrome resulting from deletion of the paternal copies of the imprinted SNRPN gene, the necdin gene, and possibly other genes within the chromosome region 15q11-q13.

neXtProt entry for NDN Gene

Proteomics data for NDN Gene at MOPED

Post-translational modifications for NDN Gene

  • Ubiquitination at Lys 223 and Lys 272
  • Modification sites at PhosphoSitePlus

Other Protein References for NDN Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for NDN Gene

Domains & Families for NDN Gene

Gene Families for NDN Gene

Protein Domains for NDN Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for NDN Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q99608

UniProtKB/Swiss-Prot:

NECD_HUMAN :
  • Contains 1 MAGE domain.
Domain:
  • Contains 1 MAGE domain.
genes like me logo Genes that share domains with NDN: view

Function for NDN Gene

Molecular function for NDN Gene

GENATLAS Biochemistry:
necdin,nuclear protein,predominantly expressed in brain (post-mitotic neurons) and placenta,maternally imprinted (paternally expressed) post mitotic neuron-specific growth suppressor with TP53 and modulating its function,also interacting with viral transforming proteins and cellular transcription factor E2F1,deleted in PWCR,growth suppressor,putatively involved in PWCR neonatal phenotype
UniProtKB/Swiss-Prot Function:
Growth suppressor that facilitates the entry of the cell into cell cycle arrest. Functionally similar to the retinoblastoma protein it binds to and represses the activity of cell-cycle-promoting proteins such as SV40 large T antigen, adenovirus E1A, and the transcription factor E2F. Necdin also interacts with p53 and works in an additive manner to inhibit cell growth. Functions also as transcription factor and binds directly to specific guanosine-rich DNA sequences (By similarity).

Gene Ontology (GO) - Molecular Function for NDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043015 gamma-tubulin binding IEA --
genes like me logo Genes that share ontologies with NDN: view
genes like me logo Genes that share phenotypes with NDN: view

Human Phenotype Ontology for NDN Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for NDN Gene

MGI Knock Outs for NDN:

Animal Model Products

miRNA for NDN Gene

miRTarBase miRNAs that target NDN

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for NDN Gene

Localization for NDN Gene

Subcellular locations from UniProtKB/Swiss-Prot for NDN Gene

Perikaryon. Nucleus. Note=Neural perikarya, translocates to the nucleus of postmitotic neurons and interacts with the nuclear matrix.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for NDN Gene COMPARTMENTS Subcellular localization image for NDN gene
Compartment Confidence
nucleus 5
cytosol 3
cytoskeleton 2

Gene Ontology (GO) - Cellular Components for NDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with NDN: view

Pathways & Interactions for NDN Gene

genes like me logo Genes that share pathways with NDN: view

Pathways by source for NDN Gene

2 BioSystems pathways for NDN Gene

Gene Ontology (GO) - Biological Process for NDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001764 neuron migration IEA --
GO:0003016 respiratory system process IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007413 axonal fasciculation IEA --
GO:0008285 negative regulation of cell proliferation IEA --
genes like me logo Genes that share ontologies with NDN: view

No data available for SIGNOR curated interactions for NDN Gene

Drugs & Compounds for NDN Gene

(1) Drugs for NDN Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(1) Additional Compounds for NDN Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with NDN: view

Transcripts for NDN Gene

mRNA/cDNA for NDN Gene

(1) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(211) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for NDN Gene

Necdin, melanoma antigen (MAGE) family member:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for NDN Gene

No ASD Table

Relevant External Links for NDN Gene

GeneLoc Exon Structure for
NDN
ECgene alternative splicing isoforms for
NDN

Expression for NDN Gene

mRNA expression in normal human tissues for NDN Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for NDN Gene

This gene is overexpressed in Peripheral blood mononuclear cells (34.8), Ovary (10.3), and Fetal testis (7.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for NDN Gene



SOURCE GeneReport for Unigene cluster for NDN Gene Hs.50130

mRNA Expression by UniProt/SwissProt for NDN Gene

Q99608-NECD_HUMAN
Tissue specificity: Almost ubiquitous. Detected in fetal brain, lung, liver and kidney; in adult heart, brain, placenta, lung, liver, skeletal muscle, kidney, pancreas, spleen, thymus, prostate, testis, ovary, small intestine and colon. Not detected in peripheral blood leukocytes. In brain, restricted to post-mitotic neurons.
genes like me logo Genes that share expression patterns with NDN: view

Protein tissue co-expression partners for NDN Gene

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for NDN Gene

Orthologs for NDN Gene

This gene was present in the common ancestor of chordates.

Orthologs for NDN Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia NDN 35
  • 87.29 (n)
  • 89.37 (a)
NDN 36
  • 87 (a)
OneToOne
dog
(Canis familiaris)
Mammalia NDN 35
  • 88.68 (n)
  • 87.85 (a)
NDN 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ndn 35
  • 85.25 (n)
  • 83.18 (a)
Ndn 16
Ndn 36
  • 82 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia NDN 35
  • 99.9 (n)
  • 100 (a)
NDN 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ndn 35
  • 84.01 (n)
  • 83.49 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 39 (a)
ManyToMany
-- 36
  • 26 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 34 (a)
OneToMany
chicken
(Gallus gallus)
Aves MAGE 36
  • 35 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 36 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii ndnl2 36
  • 34 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 31 (a)
OneToMany
Species with no ortholog for NDN:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for NDN Gene

ENSEMBL:
Gene Tree for NDN (if available)
TreeFam:
Gene Tree for NDN (if available)

Paralogs for NDN Gene

Pseudogenes.org Pseudogenes for NDN Gene

genes like me logo Genes that share paralogs with NDN: view

Variants for NDN Gene

Sequence variations from dbSNP and Humsavar for NDN Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs114077338 - 23,686,265(+) CAGAG(A/G)CACTG reference, missense
rs1722807 -- 23,685,976(+) TCAGT(A/T)TAGCA utr-variant-3-prime
rs2192206 -- 23,686,360(-) AAAGA(C/T)CCCCA reference, synonymous-codon
rs3743339 -- 23,686,251(+) ACTTT(A/G)CTAGT utr-variant-3-prime
rs3743340 -- 23,687,320(+) CGCGC(A/G)GCGCC upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for NDN Gene

Variant ID Type Subtype PubMed ID
nsv903596 CNV Gain 21882294

Variation tolerance for NDN Gene

Residual Variation Intolerance Score: 64.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.68; 32.03% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NDN Gene

HapMap Linkage Disequilibrium report
NDN

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NDN Gene

Disorders for NDN Gene

MalaCards: The human disease database

(11) MalaCards diseases for NDN Gene - From: OMIM, Orphanet, DISEASES, Novoseek, and GeneCards

Relevant External Links for NDN

Genetic Association Database (GAD)
NDN
Human Genome Epidemiology (HuGE) Navigator
NDN
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NDN
genes like me logo Genes that share disorders with NDN: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NDN Gene

Publications for NDN Gene

  1. The human necdin gene, NDN, is maternally imprinted and located in the Prader-Willi syndrome chromosomal region. (PMID: 9354807) Jay P. … Muscatelli F. (Nat. Genet. 1997) 3 4 23 67
  2. The necdin gene is deleted in Prader-Willi syndrome and is imprinted in human and mouse. (PMID: 9302265) MacDonald H.R. … Wevrick R. (Hum. Mol. Genet. 1997) 2 3 23
  3. Necdin: a multi functional protein with potential tumor suppressor role? (PMID: 19626646) Chapman E.J. … Knowles M.A. (Mol. Carcinog. 2009) 3 23
  4. Necdin plays a role in the serotonergic modulation of the mouse respiratory network: implication for Prader-Willi syndrome. (PMID: 18272695) Zanella S. … Hilaire G. (J. Neurosci. 2008) 3 23
  5. Necdin-related MAGE proteins differentially interact with the E2F1 transcription factor and the p75 neurotrophin receptor. (PMID: 14593116) Kuwako K. … Yoshikawa K. (J. Biol. Chem. 2004) 3 23

Products for NDN Gene

Sources for NDN Gene

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