Ncan MGI Mouse Gene Detail - MGI:104694

Symbol

Ncan
Name

neurocan
Synonyms

Cspg3, Cspg3-rs, Tgfbit

Feature Type

protein coding gene
IDs

MGI:104694
NCBI Gene: 13004
Alliance

gene page
Transcription Start Sites

14 TSS

Sequence Map

Chr8:70545735-70573494 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 8, 34.15 cM
Mapping Data

11 experiments

SNPs within 2kb

141 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_104694	protein coding gene	Chr8:70545735-70573523 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0033689	protein coding gene	Chr8:70341837-70369272 (-)
A/J	MGP_AJ_G0033672	protein coding gene	Chr8:67479443-67507475 (-)
AKR/J	MGP_AKRJ_G0033597	protein coding gene	Chr8:69399893-69427644 (-)
BALB/cJ	MGP_BALBcJ_G0033668	protein coding gene	Chr8:67709727-67737178 (-)
C3H/HeJ	MGP_C3HHeJ_G0033378	protein coding gene	Chr8:70045459-70072888 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0034185	protein coding gene	Chr8:72998375-73027711 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0031129	protein coding gene	Chr8:62299025-62327268 (-)
CAST/EiJ	MGP_CASTEiJ_G0032703	protein coding gene	Chr8:69527517-69558495 (-)
CBA/J	MGP_CBAJ_G0033356	protein coding gene	Chr8:75641710-75675438 (-)
DBA/2J	MGP_DBA2J_G0033510	protein coding gene	Chr8:67206400-67234193 (-)
FVB/NJ	MGP_FVBNJ_G0033451	protein coding gene	Chr8:66304831-66335573 (-)
LP/J	MGP_LPJ_G0033597	protein coding gene	Chr8:70381672-70409140 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0033495	protein coding gene	Chr8:78303843-78331556 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0034203	protein coding gene	Chr8:69580315-69608213 (-)
PWK/PhJ	MGP_PWKPhJ_G0032411	protein coding gene	Chr8:66491115-66519249 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0032247	protein coding gene	Chr8:68554154-68582997 (-)
WSB/EiJ	MGP_WSBEiJ_G0032818	protein coding gene	Chr8:69941362-69968851 (-)

Human Ortholog

NCAN, neurocan

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

NCAN, neurocan
Synonyms

CSPG3
Links

HGNC:2465

NCBI Gene ID: 1463

neXtProt AC: NX_O14594

UniProt: O14594
Chr Location

19p13.11; chr19:19211958-19252233 (+) GRCh38

MGI Vertebrate Homology

Ncan stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: NCAN
Gene Tree

Ncan

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Phenotype Summary

1 phenotype from 3 alleles in 1 genetic background
15 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

15
Chemically induced (other)

1
Endonuclease-mediated

2
Gene trapped

7
Targeted

5
Genomic Mutations

1 involving Ncan
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

46 strains or lines available

Mice homozygous for targeted null mutations are viable and fertile and exhibit normal behavior and brain anatomy; however, mild defects in long term potentiation were noted.

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All GO Annotations

23
GO References

7

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

949
Tissues

107
cDNA Data

14
Literature Summary

22

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase ncan

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All Sequences

39
RefSeq

2
UniProt

2
CCDS

CCDS22358.1

Ensembl

ENSMUSG00000002341 (Evidence)
NCBI Gene

13004

			Length	Strain/Species	Flank
genomic	13004	NCBI Gene Model \| MGI Sequence Detail	27760	C57BL/6J	± kb
transcript	NM_007789	RefSeq \| MGI Sequence Detail	7184	ZRU/MplStud
polypeptide	P55066	UniProt \| EBI \| MGI Sequence Detail	1268	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000011019 neurocan core protein

(term hierarchy)
InterPro Domains

IPR018378 C-type lectin, conserved site

IPR016187 C-type lectin fold

IPR001304 C-type lectin-like

IPR016186 C-type lectin-like/link domain superfamily

IPR018097 EGF-like calcium-binding, conserved site

IPR001881 EGF-like calcium-binding domain

IPR000742 EGF-like domain

IPR000152 EGF-type aspartate/asparagine hydroxylation site

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR013106 Immunoglobulin V-set domain

IPR000538 Link domain

IPR000436 Sushi/SCR/CCP domain

IPR035976 Sushi/SCR/CCP superfamily

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All nucleic 19

Genomic 1

cDNA 16

Primer pair 2

Microarray probesets 8

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MGD-MRK-18658, MGD-MRK-27057, MGI:101837, MGI:1097681

Summaries

All 76

Developmental Gene Expression 22

Gene Ontology 7

Phenotypes 15
Earliest

J:17902 Weisz PV, et al., Expression of a TGF beta regulated, brain-specific mRNA in serum-free mouse embryo (SFME) cells. Neurosci Lett. 1993 May 14;154(1-2):153-6
Latest

J:346596 Mubuchi A, et al., Assembly of neuron- and radial glial-cell-derived extracellular matrix molecules promotes radial migration of developing cortical neurons. Elife. 2024 Mar 21;12

TSS for Ncan:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr81592	Chr8:70573466-70573482 (-)	20 bp
Tssr81591	Chr8:70562883-70562894 (-)	10,605 bp
Tssr81590	Chr8:70562859-70562870 (-)	10,629 bp
Tssr81589	Chr8:70561156-70561180 (-)	12,326 bp
Tssr81588	Chr8:70561096-70561108 (-)	12,392 bp
Tssr81587	Chr8:70548717-70548728 (-)	24,771 bp
Tssr81586	Chr8:70548453-70548464 (-)	25,035 bp
Tssr81585	Chr8:70548339-70548350 (-)	25,149 bp
Tssr81584	Chr8:70548184-70548200 (-)	25,302 bp
Tssr81583	Chr8:70547928-70547946 (-)	25,557 bp
Tssr81582	Chr8:70547889-70547908 (-)	25,595 bp
Tssr81581	Chr8:70547823-70547856 (-)	25,654 bp
Tssr81580	Chr8:70547797-70547808 (-)	25,691 bp
Tssr81579	Chr8:70546230-70546252 (-)	27,253 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 04/23/2024 MGI 6.23