Ncan neurocan [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ncanprovided by RGD
Full Name: neurocanprovided by RGD
Primary source: RGD:619941
See related: EnsemblRapid:ENSRNOG00000048036 AllianceGenome:RGD:619941
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Cspg3
Summary: Predicted to enable calcium ion binding activity; carbohydrate binding activity; and hyaluronic acid binding activity. Predicted to be involved in several processes, including nervous system development; positive regulation of neuroblast proliferation; and regulation of postsynapse organization. Predicted to act upstream of or within regulation of synapse structural plasticity. Located in perineuronal net. Is active in synapse. Orthologous to human NCAN (neurocan). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Restricted expression toward (RPKM 131.1) See more
Orthologs: human mouse all
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Genomic context

Location:: 16p14

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (19335907..19362371)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (19301969..19328436)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (21050243..21076707)

Chromosome 16 - NC_086034.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

In vitro results showed that MMP-2 was the dominant MMP expressed by olfactory ensheathing cells (OECs). In vivo results revealed that transplanted OECs secreted MMP-2 in injured spinal cord and that the transplantation decreased neurocan expression.
Title: Olfactory ensheathing cells (OECs) degrade neurocan in injured spinal cord by secreting matrix metalloproteinase-2 in a rat contusion model.
Results report for the first time that extracellular matrix chondroitin sulphate proteoglycan, CSPG3 (neurocan) is upregulated after primary inflammatory injury.
Title: Upregulation of CSPG3 accompanies neuronal progenitor proliferation and migration in EAE.
Our data suggest that BMSCs promote axonal regeneration by reducing neurocan expression in peri-infarct astrocytes.
Title: Down-regulation of neurocan expression in reactive astrocytes promotes axonal regeneration and facilitates the neurorestorative effects of bone marrow stromal cells in the ischemic rat brain.
induction of neurocan expression by reactive astrocytes is a common phenomenon in the repair process of adult brain injury, and therefore, it can be postulated that juvenile-type neurocan plays some roles in brain repair.
Title: Transient expression of juvenile-type neurocan by reactive astrocytes in adult rat brains injured by kainate-induced seizures as well as surgical incision.
The expression pattern and cell associations of inhibitory CSPG3 have important implications for axon regeneration across acute and chronic spinal cord scar tissue.
Title: Changes in distribution, cell associations, and protein expression levels of NG2, neurocan, phosphacan, brevican, versican V2, and tenascin-C during acute to chronic maturation of spinal cord scar tissue.
Data suggest that the reported temporal co-expression of cartilage link protein and neurocan in developing brain implicates the possibility of a cooperative function of these molecules.
Title: Cartilage link protein interacts with neurocan, which shows hyaluronan binding characteristics different from CD44 and TSG-6.
A wide distribution of neurocan immunoreactivity in both neurons and astrocytes of adult rats follows up-regulation of neurocan mRNA in the distal cord shortly after transection; by contrast, upregulation of neurocan mRNA is not seen in infant rats.
Title: Changes in neurocan expression in the distal spinal cord stump following complete cord transection: a comparison between infant and adult rats.
accumulation of the full-length neurocan produced by reactive astrocytes may be one of the processes for tissue repair and reconstruction of neural networks
Title: Expression of neurocan after transient middle cerebral artery occlusion in adult rat brain.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
enables hyaluronic acid binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynapse organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of synapse structural plasticity	ISO Inferred from Sequence Orthology more info
involved_in skeletal system development	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	ISO Inferred from Sequence Orthology more info
located_in extracellular matrix	IEA Inferred from Electronic Annotation more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in perineuronal net	IBA Inferred from Biological aspect of Ancestor more info
located_in perineuronal net	IDA Inferred from Direct Assay more info	PubMed
is_active_in perisynaptic extracellular matrix	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	TAS Traceable Author Statement more info
is_active_in synapse	EXP Inferred from Experiment more info	PubMed
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info
is_active_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: neurocan core protein

Names: 245 kDa early postnatal core glycoprotein; chondroitin sulfate proteoglycan 3; neurocan core protein-like

NCBI Reference Sequences (RefSeq)

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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)

NM_031653.2 → NP_113841.2 neurocan core protein precursor

See identical proteins and their annotated locations for NP_113841.2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000016

UniProtKB/Swiss-Prot

P55067

UniProtKB/TrEMBL

A6KA90, F1LNN7, G3V8R2

Related

ENSRNOP00000062123.2, ENSRNOT00000064308.5

Conserved Domains (7) summary

cd00033
Location:1162 → 1218

CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system

cd00054
Location:993 → 1029

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd03517
Location:159 → 253

Link_domain_CSPGs_modules_1_3; Link_domain_CSPGs_modules_1_3; this extracellular link domain is found in the first and third link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan. In addition, it is found in the first link module of three other CSPGs: ...

cd03520
Location:260 → 355

Link_domain_CSPGs_modules_2_4; Link_domain_CSPGs_modules_2_4; this link domain is found in the second and fourth link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan and, in the second link module of three other CSPGs: versican, neurocan, and brevican. The ...

pfam00008
Location:959 → 989

EGF; EGF-like domain

cl02432
Location:1035 → 1158

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

cl11960
Location:50 → 160

Ig; Immunoglobulin domain