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Aliases for NCDN Gene

Aliases for NCDN Gene

  • Neurochondrin 2 3 3 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.

UniProtKB/Swiss-Prot 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

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

Genomics for NCDN Gene

Regulatory Elements for NCDN Gene

Enhancers for NCDN Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01F035444 0.9 Ensembl ENCODE 11.6 -107.8 -107762 11.4 HDAC1 HDGF PKNOX1 WRNIP1 ARID4B RAD21 YY1 ZNF766 GATA2 ZNF143 RPL5P4 KIAA0319L NCDN ZMYM1 ENSG00000232335 CLSPN SFPQ ZMYM4 GC01P035455 GC01M035428
GH01F035457 0.8 ENCODE 11.5 -99.6 -99562 1.5 ZNF366 IKZF1 MLLT1 TBX21 NCDN KIAA0319L ENSG00000232335 CLSPN GC01P035455 GC01P035467
GH01F035505 0.6 Ensembl ENCODE 11.4 -49.8 -49808 4.7 ATF1 PKNOX1 FEZF1 ZNF2 GLIS2 GATA2 FOS ZNF263 JUNB REST ZMYM1 KIAA0319L ENSG00000230163 LOC105378647 THRAP3 SFPQ TMEM35B RPL5P4 NCDN LOC653160
GH01F035603 0.2 ENCODE 11.2 +46.2 46202 0.2 KIAA0319L LOC105378645 TFAP2E NCDN ENSG00000232335 CLSPN GC01P035622
GH01F035476 0.6 ENCODE 11.2 -81.0 -80999 0.2 OSR2 ZSCAN16 GLIS1 ZNF600 TRIM28 KIAA0319L NCDN ENSG00000232335 CLSPN GC01P035467 LOC100419802
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around NCDN on UCSC Golden Path with GeneCards custom track

Promoters for NCDN Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000164626 227 3001 HDGF PKNOX1 ARNT CREB3L1 MLX WRNIP1 ARID4B SIN3A YBX1 FEZF1

Genomic Location for NCDN Gene

Chromosome:
1
Start:
35,557,473 bp from pter
End:
35,567,274 bp from pter
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.
    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 Lys 272
  • 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

Protein Domains for NCDN Gene

Suggested Antigen Peptide Sequences for NCDN Gene

GenScript: Design optimal peptide antigens:

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

No data available for Gene Families for NCDN Gene

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

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , 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
Jensen Localization Image for NCDN Gene COMPARTMENTS Subcellular localization image for NCDN gene
Compartment Confidence
cytosol 5
plasma membrane 3
peroxisome 2

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 IDA 19946888
GO:0030424 NOT axon ISS --
genes like me logo Genes that share ontologies with NCDN: view

Pathways & Interactions for NCDN Gene

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

Transcripts for NCDN Gene

Unigene Clusters for NCDN Gene

Neurochondrin:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry 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
ECgene alternative splicing isoforms for
NCDN

Expression for NCDN Gene

mRNA expression in normal human tissues 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, PaxDb, MaxQB, and MOPED for NCDN Gene



Protein tissue co-expression partners for NCDN Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NCDN Gene:

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.
genes like me logo Genes that share expression patterns with NCDN: view

Primer Products

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 34 35
  • 99.77 (n)
oppossum
(Monodelphis domestica)
Mammalia NCDN 35
  • 95 (a)
OneToOne
cow
(Bos Taurus)
Mammalia NCDN 34 35
  • 92.59 (n)
dog
(Canis familiaris)
Mammalia NCDN 34 35
  • 91.68 (n)
mouse
(Mus musculus)
Mammalia Ncdn 34 16 35
  • 90.76 (n)
rat
(Rattus norvegicus)
Mammalia Ncdn 34
  • 90.67 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NCDN 35
  • 59 (a)
OneToOne
chicken
(Gallus gallus)
Aves NCDN 34 35
  • 64.36 (n)
lizard
(Anolis carolinensis)
Reptilia NCDN 35
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ncdn 34
  • 55.21 (n)
zebrafish
(Danio rerio)
Actinopterygii ncdn 34 35
  • 50.27 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013338 34
  • 47.48 (n)
fruit fly
(Drosophila melanogaster)
Insecta Neurochondrin 34 35
  • 47.21 (n)
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)

Paralogs for NCDN Gene

No data available for Paralogs for NCDN Gene

Variants for NCDN Gene

Sequence variations from dbSNP and Humsavar for NCDN Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs753974779 A colorectal cancer sample 35,562,423(+) CTTTG(A/T)GTTTG reference, missense
VAR_039850 A colorectal cancer sample
rs10796921 -- 35,556,782(+) AAATC(C/G)TGGAT intron-variant, upstream-variant-2KB
rs112310803 -- 35,558,059(+) ATATC(-/T)TTTTT intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs11264175 -- 35,564,720(+) AGGTT(A/G)GGTTG intron-variant

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)

Relevant External Links for NCDN Gene

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

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

Disorders for NCDN Gene

Relevant External Links for NCDN

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NCDN

No disorders were found for NCDN Gene.

No data available for MalaCards , 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. … Fukamizu A. (Biochim. Biophys. Acta 1999) 3 4 22 64
  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. … Baechner D. (J. Biol. Chem. 2006) 4 22 64
  3. Corrigendum to 'Molecular cloning and expression of human neurochondrin-1 and -2'(1). (PMID: 10684983) Mochizuki R. … Fukamizu A. (Biochim. Biophys. Acta 2000) 3 4 64
  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 Res. 1998) 3 4 64
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64

Products for NCDN Gene

Sources for NCDN Gene

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