Human Gene NDN (ENST00000331837.5) Description and Page Index
  Description: Homo sapiens necdin, MAGE family member (NDN), mRNA. (from RefSeq NM_002487)
RefSeq Summary (NM_002487): 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]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##RefSeq-Attributes-START## imprinted gene :: PMID: 9302265 ##RefSeq-Attributes-END##
Gencode Transcript: ENST00000331837.5
Gencode Gene: ENSG00000182636.5
Transcript (Including UTRs)
   Position: hg38 chr15:23,685,400-23,687,330 Size: 1,931 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg38 chr15:23,686,252-23,687,217 Size: 966 Coding Exon Count: 1 

Page IndexSequence and LinksMalaCardsCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Methods
Data last updated: 2016-03-28

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:23,685,400-23,687,330)mRNA (may differ from genome)Protein (321 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGepis Tissue
HGNCHPRDLynxMGIMOPEDOMIM
PubMedStanford SOURCEUniProtKBWikipedia

-  MalaCards Disease Associations
  MalaCards Gene Search: NDN
Diseases sorted by gene-association score: prader-willi syndrome* (15), prader-willi syndrome due to paternal deletion of 15q11q13 type 1* (15), prader-willi syndrome due to paternal deletion of 15q11q13 type 2* (15), prader-willi syndrome due to imprinting mutation* (15), prader-willi syndrome due to maternal uniparental disomy of chromosome 15* (15), angelman syndrome (2), autism spectrum disorder (2)
* = Manually curated disease association

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 61.78 RPKM in Cervix - Ectocervix
Total median expression: 1292.38 RPKM



View in GTEx track of Genome Browser    View at GTEx portal

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -44.60113-0.395 Picture PostScript Text
3' UTR -208.00852-0.244 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
IPR002190 - MHD_dom
IPR030086 - Necdin

Pfam Domains:
PF01454 - MAGE family

ModBase Predicted Comparative 3D Structure on X5D982
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0043015 gamma-tubulin binding

Biological Process:
GO:0001764 neuron migration
GO:0003016 respiratory system process
GO:0006355 regulation of transcription, DNA-templated
GO:0007409 axonogenesis
GO:0007413 axonal fasciculation
GO:0007417 central nervous system development
GO:0007585 respiratory gaseous exchange
GO:0008285 negative regulation of cell proliferation
GO:0008347 glial cell migration
GO:0009791 post-embryonic development
GO:0019233 sensory perception of pain
GO:0048011 neurotrophin TRK receptor signaling pathway
GO:0048666 neuron development
GO:0048675 axon extension
GO:0048871 multicellular organismal homeostasis
GO:0071514 genetic imprinting

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005829 cytosol
GO:0042995 cell projection


-  Descriptions from all associated GenBank mRNAs
  LF205111 - JP 2014500723-A/12614: Polycomb-Associated Non-Coding RNAs.
LF212110 - JP 2014500723-A/19613: Polycomb-Associated Non-Coding RNAs.
LF207704 - JP 2014500723-A/15207: Polycomb-Associated Non-Coding RNAs.
JD357504 - Sequence 338528 from Patent EP1572962.
JD112983 - Sequence 94007 from Patent EP1572962.
BC008750 - Homo sapiens necdin homolog (mouse), mRNA (cDNA clone MGC:1697 IMAGE:3347128), complete cds.
U35139 - Human NECDIN related protein mRNA, complete cds.
AK129654 - Homo sapiens cDNA FLJ26143 fis, clone TST05234.
LF213920 - JP 2014500723-A/21423: Polycomb-Associated Non-Coding RNAs.
JD411042 - Sequence 392066 from Patent EP1572962.
JD475928 - Sequence 456952 from Patent EP1572962.
AK312779 - Homo sapiens cDNA, FLJ93195, Homo sapiens necdin homolog (mouse) (NDN), mRNA.
HQ448156 - Synthetic construct Homo sapiens clone IMAGE:100071542; CCSB004564_02 necdin homolog (mouse) (NDN) gene, encodes complete protein.
KJ905235 - Synthetic construct Homo sapiens clone ccsbBroadEn_14709 NDN gene, encodes complete protein.
KJ534888 - Homo sapiens clone NDN_iso-A_adult-A02 necdin isoform A (NDN) mRNA, partial cds, alternatively spliced.
KJ535010 - Homo sapiens clone NDN_iso-B_fetal-F13 necdin isoform B (NDN) mRNA, complete cds, alternatively spliced.
KU178221 - Homo sapiens necdin-like protein isoform 1 (NDN) mRNA, partial cds.
KU178222 - Homo sapiens necdin-like protein isoform 2 (NDN) mRNA, partial cds, alternatively spliced.
KU178223 - Homo sapiens necdin-like protein isoform 3 (NDN) mRNA, complete cds, alternatively spliced.
KU178224 - Homo sapiens necdin-like protein isoform 4 (NDN) mRNA, complete cds, alternatively spliced.
KU178225 - Homo sapiens necdin-like protein isoform 5 (NDN) mRNA, partial cds, alternatively spliced.
AB464627 - Synthetic construct DNA, clone: pF1KB9826, Homo sapiens NDN gene for necdin homolog, without stop codon, in Flexi system.
LF368150 - JP 2014500723-A/175653: Polycomb-Associated Non-Coding RNAs.
CU679085 - Synthetic construct Homo sapiens gateway clone IMAGE:100023433 5' read NDN mRNA.
JD400460 - Sequence 381484 from Patent EP1572962.
JD326594 - Sequence 307618 from Patent EP1572962.
JD254258 - Sequence 235282 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NDN , NM_002487, X5D982, X5D982_HUMAN
UCSC ID: uc001ywk.4
RefSeq Accession: NM_002487
Protein: X5D982 CCDS: CCDS10014.1

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