This gene encodes a leucine-rich cytoplasmic protein, which is highly similar to a mouse protein that negatively regulates Ca/calmodulin-dependent protein kinase II phosphorylation and may be essential for spatial learning processes. Several alternatively spliced transcript variants of this gene have been described. [provided by RefSeq, Jul 2008] See more...

Aliases for NCDN Gene

Aliases for NCDN Gene

  • Neurochondrin 2 3 4 5
  • KIAA0607 4

External Ids for NCDN Gene

Previous GeneCards Identifiers for NCDN Gene

  • GC01P035844
  • GC01P035080
  • GC01P035449
  • GC01P035451
  • GC01P035692
  • GC01P035795
  • GC01P036023
  • GC01P034141

Summaries for NCDN Gene

Entrez Gene Summary for NCDN Gene

  • This gene encodes a leucine-rich cytoplasmic protein, which is highly similar to a mouse protein that negatively regulates Ca/calmodulin-dependent protein kinase II phosphorylation and may be essential for spatial learning processes. Several alternatively spliced transcript variants of this gene have been described. [provided by RefSeq, Jul 2008]

GeneCards Summary for NCDN Gene

NCDN (Neurochondrin) is a Protein Coding gene. Diseases associated with NCDN include Epidemic Pleurodynia and Vertebral Artery Occlusion.

UniProtKB/Swiss-Prot Summary for NCDN Gene

  • Probably involved in signal transduction, in the nervous system, via increasing cell surface localization of GRM5 and positively regulating its signaling (By similarity). Required for the spatial learning process. Acts as a negative regulator of Ca(2+)-calmodulin-dependent protein kinase 2 (CaMK2) phosphorylation. May play a role in modulating melanin-concentrating hormone-mediated functions via its interaction with MCHR1 that interferes with G protein-coupled signal transduction. May be involved in bone metabolism. May also be involved in neurite outgrowth.

Gene Wiki entry for NCDN Gene

Additional gene information for NCDN Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NCDN Gene

Genomics for NCDN Gene

GeneHancer (GH) Regulatory Elements for NCDN Gene

Promoters and enhancers for NCDN Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NCDN on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NCDN

Top Transcription factor binding sites by QIAGEN in the NCDN gene promoter:
  • AREB6
  • Brachyury
  • CUTL1
  • E4BP4
  • GATA-2
  • HEN1
  • Ik-2
  • MZF-1
  • ZID

Genomic Locations for NCDN Gene

Genomic Locations for NCDN Gene
chr1:35,557,473-35,567,274
(GRCh38/hg38)
Size:
9,802 bases
Orientation:
Plus strand
chr1:36,023,074-36,032,875
(GRCh37/hg19)
Size:
9,802 bases
Orientation:
Plus strand

Genomic View for NCDN Gene

Genes around NCDN on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for NCDN Gene

Proteins for NCDN Gene

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

    Protein Symbol:
    Q9UBB6-NCDN_HUMAN
    Recommended name:
    Neurochondrin
    Protein Accession:
    Q9UBB6
    Secondary Accessions:
    • D3DPR9
    • Q9UBY2
    • Q9Y4A6
    • Q9Y4D9

    Protein attributes for NCDN Gene

    Size:
    729 amino acids
    Molecular mass:
    78864 Da
    Quaternary structure:
    • Interacts with SEMA4C, DIAPH1 (via FH3 domain) and GRM5 (By similarity). Interacts with MCHR1.
    Miscellaneous:
    • [Isoform 3]: Incomplete sequence.
    SequenceCaution:
    • Sequence=AAD05029.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for NCDN Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NCDN Gene

Post-translational modifications for NCDN Gene

  • Ubiquitination at Lys272
  • Modification sites at PhosphoSitePlus

Other Protein References for NCDN Gene

No data available for DME Specific Peptides for NCDN Gene

Domains & Families for NCDN Gene

Gene Families for NCDN Gene

Protein Domains for NCDN Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for NCDN Gene

GenScript: Design optimal peptide antigens:
  • Neurochondrin (NCDN_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9UBB6

UniProtKB/Swiss-Prot:

NCDN_HUMAN :
  • Belongs to the neurochondrin family.
Family:
  • Belongs to the neurochondrin family.
genes like me logo Genes that share domains with NCDN: view

Function for NCDN Gene

Molecular function for NCDN Gene

UniProtKB/Swiss-Prot Function:
Probably involved in signal transduction, in the nervous system, via increasing cell surface localization of GRM5 and positively regulating its signaling (By similarity). Required for the spatial learning process. Acts as a negative regulator of Ca(2+)-calmodulin-dependent protein kinase 2 (CaMK2) phosphorylation. May play a role in modulating melanin-concentrating hormone-mediated functions via its interaction with MCHR1 that interferes with G protein-coupled signal transduction. May be involved in bone metabolism. May also be involved in neurite outgrowth.

Gene Ontology (GO) - Molecular Function for NCDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21044950
genes like me logo Genes that share ontologies with NCDN: view
genes like me logo Genes that share phenotypes with NCDN: view

Animal Models for NCDN Gene

MGI Knock Outs for NCDN:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NCDN

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NCDN Gene

Localization for NCDN Gene

Subcellular locations from UniProtKB/Swiss-Prot for NCDN Gene

Cytoplasm, cytosol. Cell projection, dendrite. Note=Localizes to somatic regions of neurons.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NCDN gene
Compartment Confidence
cytosol 5
plasma membrane 3
extracellular 1
cytoskeleton 1
mitochondrion 1
peroxisome 1
nucleus 1
endoplasmic reticulum 1
endosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for NCDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 NOT nucleus ISS --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol ISS --
GO:0016020 membrane HDA 19946888
GO:0030424 NOT axon ISS --
genes like me logo Genes that share ontologies with NCDN: view

Pathways & Interactions for NCDN Gene

PathCards logo

SuperPathways for NCDN Gene

No Data Available

Gene Ontology (GO) - Biological Process for NCDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0031175 neuron projection development IEA,ISS --
GO:0045453 bone resorption IEA --
GO:0048168 regulation of neuronal synaptic plasticity IEA --
genes like me logo Genes that share ontologies with NCDN: view

No data available for Pathways by source and SIGNOR curated interactions for NCDN Gene

Drugs & Compounds for NCDN Gene

No Compound Related Data Available

Transcripts for NCDN Gene

mRNA/cDNA for NCDN Gene

3 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
6 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NCDN

Clone Products

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

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b
SP1: - - -
SP2: - - - -
SP3: - -
SP4:
SP5: -

Relevant External Links for NCDN Gene

GeneLoc Exon Structure for
NCDN

Expression for NCDN Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NCDN Gene

mRNA differential expression in normal tissues according to GTEx for NCDN Gene

This gene is overexpressed in Brain - Nucleus accumbens (basal ganglia) (x9.7), Brain - Putamen (basal ganglia) (x6.7), Brain - Caudate (basal ganglia) (x6.2), and Brain - Cortex (x4.5).

Protein differential expression in normal tissues from HIPED for NCDN Gene

This gene is overexpressed in Frontal cortex (25.6), Brain (18.5), and Bone (12.8).

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



Protein tissue co-expression partners for NCDN Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NCDN

SOURCE GeneReport for Unigene cluster for NCDN Gene:

Hs.121870

mRNA Expression by UniProt/SwissProt for NCDN Gene:

Q9UBB6-NCDN_HUMAN
Tissue specificity: Abundantly expressed in whole adult brain and in all individual brain regions examined, including spinal cord. Weakly expressed in ovary, testis, fetal brain and small intestine.

Evidence on tissue expression from TISSUES for NCDN Gene

  • Nervous system(4.8)
genes like me logo Genes that share expression patterns with NCDN: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for NCDN Gene

Orthologs for NCDN Gene

This gene was present in the common ancestor of animals.

Orthologs for NCDN Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NCDN 31 30
  • 99.77 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NCDN 31
  • 95 (a)
OneToOne
cow
(Bos Taurus)
Mammalia NCDN 31 30
  • 92.59 (n)
OneToOne
dog
(Canis familiaris)
Mammalia NCDN 31 30
  • 91.68 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Ncdn 17 31 30
  • 90.76 (n)
rat
(Rattus norvegicus)
Mammalia Ncdn 30
  • 90.67 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NCDN 31
  • 59 (a)
OneToOne
chicken
(Gallus gallus)
Aves NCDN 31 30
  • 64.36 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NCDN 31
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ncdn 30
  • 55.21 (n)
zebrafish
(Danio rerio)
Actinopterygii ncdn 31 30
  • 50.27 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013338 30
  • 47.48 (n)
fruit fly
(Drosophila melanogaster)
Insecta Neurochondrin 31 30
  • 47.21 (n)
OneToOne
Species where no ortholog for NCDN was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for NCDN Gene

ENSEMBL:
Gene Tree for NCDN (if available)
TreeFam:
Gene Tree for NCDN (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NCDN: view image

Paralogs for NCDN Gene

No data available for Paralogs for NCDN Gene

Variants for NCDN Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NCDN Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs753974779 A colorectal cancer sample p.Val392Glu
VAR_039850 A colorectal cancer sample p.Val392Leu

Additional dbSNP identifiers (rs#s) for NCDN Gene

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

Variant ID Type Subtype PubMed ID
nsv1012556 CNV gain 25217958

Variation tolerance for NCDN Gene

Residual Variation Intolerance Score: 2.49% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.60; 12.98% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NCDN Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NCDN

SNP Genotyping and Copy Number Assay Products

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

Disorders for NCDN Gene

MalaCards: The human disease database

(3) MalaCards diseases for NCDN Gene - From: DISEASES

Disorder Aliases PubMed IDs
epidemic pleurodynia
  • bamble disease
vertebral artery occlusion
  • occlusion and stenosis of vertebral artery
osteochondrosis
  • juvenile osteochondrosis of tibial tubercle
- elite association - COSMIC cancer census association via MalaCards
Search NCDN in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NCDN

genes like me logo Genes that share disorders with NCDN: view

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

Publications for NCDN Gene

  1. Molecular cloning and expression of human neurochondrin-1 and -2. (PMID: 10524216) Mochizuki R … Murakami K (Biochimica et biophysica acta 1999) 3 4 23 54
  2. Interaction of neurochondrin with the melanin-concentrating hormone receptor 1 interferes with G protein-coupled signal transduction but not agonist-mediated internalization. (PMID: 16945926) Francke F … Bächner D (The Journal of biological chemistry 2006) 4 23 54
  3. Corrigendum to 'Molecular cloning and expression of human neurochondrin-1 and -2'(1). (PMID: 10684983) Mochizuki R … Fukamizu A (Biochimica et biophysica acta 2000) 3 4 54
  4. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PMID: 9628581) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1998) 3 4 54
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 54

Products for NCDN Gene

Sources for NCDN Gene