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NCDN neurochondrin [ Homo sapiens (human) ]

Gene ID: 23154, updated on 3-May-2020

Summary

Official Symbol
NCDNprovided by HGNC
Official Full Name
neurochondrinprovided by HGNC
Primary source
HGNC:HGNC:17597
See related
Ensembl:ENSG00000020129 MIM:608458
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
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]
Expression
Biased expression in brain (RPKM 97.7), adrenal (RPKM 7.8) and 6 other tissues See more
Orthologs

Genomic context

See NCDN in Genome Data Viewer
Location:
1p34.3
Exon count:
8
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (35557792..35566779)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (36023311..36032380)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene KIAA0319 like Neighboring gene RNY5 pseudogene 1 Neighboring gene zinc finger protein 485 pseudogene Neighboring gene TFAP2E antisense RNA 1 Neighboring gene transcription factor AP-2 epsilon Neighboring gene proteasome 20S subunit beta 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0607

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
bone resorption IEA
Inferred from Electronic Annotation
more info
 
neuron projection development ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of neuronal synaptic plasticity IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
NOT axon ISS
Inferred from Sequence or Structural Similarity
more info
 
cytosol IDA
Inferred from Direct Assay
more info
PubMed 
cytosol ISS
Inferred from Sequence or Structural Similarity
more info
 
dendrite ISS
Inferred from Sequence or Structural Similarity
more info
 
endosome membrane IEA
Inferred from Electronic Annotation
more info
 
membrane HDA PubMed 
membrane IDA
Inferred from Direct Assay
more info
PubMed 
neuronal cell body ISS
Inferred from Sequence or Structural Similarity
more info
 
NOT nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
perikaryon IEA
Inferred from Electronic Annotation
more info
 
postsynapse IEA
Inferred from Electronic Annotation
more info
 

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001014839.1NP_001014839.1  neurochondrin isoform 1

    See identical proteins and their annotated locations for NP_001014839.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1), also known as NCDN-1, encodes the longer isoform (1).
    Source sequence(s)
    AB018739, AL536768, AW207151, BC024592
    Consensus CDS
    CCDS392.1
    UniProtKB/Swiss-Prot
    Q9UBB6
    Related
    ENSP00000348394.4, ENST00000356090.8
    Conserved Domains (1) summary
    pfam05536
    Location:30637
    Neurochondrin; Neurochondrin
  2. NM_001014841.1NP_001014841.1  neurochondrin isoform 2

    See identical proteins and their annotated locations for NP_001014841.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2), also known as NCDN-2, contains a distinct 5' UTR and lacks an in-frame portion of the 5' coding region, compared to variant 1. The resulting isoform (2) has a shorter N-terminus when compared to isoform 1.
    Source sequence(s)
    AB018740, AL536768, AW207151, BC024592
    Consensus CDS
    CCDS30672.1
    UniProtKB/Swiss-Prot
    Q9UBB6
    Related
    ENSP00000362350.3, ENST00000373253.7
    Conserved Domains (1) summary
    pfam05536
    Location:13620
    Neurochondrin; Neurochondrin
  3. NM_014284.3NP_055099.1  neurochondrin isoform 1

    See identical proteins and their annotated locations for NP_055099.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 encode the same isoform (1).
    Source sequence(s)
    AL536768, AW207151, BC024592, BI545092
    Consensus CDS
    CCDS392.1
    UniProtKB/Swiss-Prot
    Q9UBB6
    Related
    ENSP00000362340.2, ENST00000373243.7
    Conserved Domains (1) summary
    pfam05536
    Location:30637
    Neurochondrin; Neurochondrin

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    35557792..35566779
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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