Ncan (neurocan) - Rat Genome Database
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Gene: Ncan (neurocan) Mus musculus
Analyze
Symbol: Ncan
Name: neurocan
RGD ID: 736053
MGI Page MGI
Description: Predicted to have calcium ion binding activity; carbohydrate binding activity; and hyaluronic acid binding activity. Involved in regulation of synapse structural plasticity. Predicted to localize to perineuronal net and synapse. Is expressed in central nervous system; dorsal root ganglion; neural retina; olfactory system; and trigeminal nerve. Orthologous to human NCAN (neurocan); PARTICIPATES IN syndecan signaling pathway; INTERACTS WITH 3,4-methylenedioxymethamphetamine; 4-hydroxyphenyl retinamide; clozapine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: C230035B04; chondroitin sulfate proteoglycan 3, related sequence; Csp; Cspg; Cspg3; Cspg3-rs; neurocan core protein; TGFbeta-induced transcript, brain; Tgfbi; Tgfbit
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,545,735 - 70,573,494 (-)NCBIGRCm39mm39
GRCm38870,093,085 - 70,120,863 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,093,085 - 70,120,873 (-)EnsemblGRCm38mm10GRCm38
MGSCv37872,616,984 - 72,644,743 (-)NCBIGRCm37mm9NCBIm37
MGSCv36873,022,074 - 73,049,799 (-)NCBImm8
MGSCv36869,493,766 - 69,521,494 (-)NCBImm8
Celera872,625,364 - 72,676,283 (-)NCBICelera
Cytogenetic Map8B3.3NCBI
cM Map834.15NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:7490074   PMID:8361632   PMID:8829553   PMID:8855285   PMID:8889548   PMID:8954808   PMID:9004555   PMID:9169155   PMID:9184108   PMID:9417917   PMID:9593903   PMID:9716537  
PMID:10349636   PMID:10766023   PMID:10811610   PMID:10851024   PMID:10861539   PMID:11027579   PMID:11042159   PMID:11076861   PMID:11239428   PMID:11486035   PMID:12477932   PMID:14610273  
PMID:14757526   PMID:15170228   PMID:15198637   PMID:15283989   PMID:15489334   PMID:15694392   PMID:16141072   PMID:16141073   PMID:16324103   PMID:16537572   PMID:16602821   PMID:17131200  
PMID:18501628   PMID:18799693   PMID:19833921   PMID:20436479   PMID:21267068   PMID:21353194   PMID:21566336   PMID:21677750   PMID:21873635   PMID:22628090   PMID:22952076   PMID:23637166  
PMID:25344368   PMID:26472242   PMID:27317830   PMID:27507650   PMID:28512860   PMID:28671696   PMID:28706196   PMID:29367009   PMID:30333037   PMID:31558805   PMID:32220631   PMID:32325033  
PMID:32581705   PMID:32634529  


Genomics

Comparative Map Data
Ncan
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,545,735 - 70,573,494 (-)NCBIGRCm39mm39
GRCm38870,093,085 - 70,120,863 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,093,085 - 70,120,873 (-)EnsemblGRCm38mm10GRCm38
MGSCv37872,616,984 - 72,644,743 (-)NCBIGRCm37mm9NCBIm37
MGSCv36873,022,074 - 73,049,799 (-)NCBImm8
MGSCv36869,493,766 - 69,521,494 (-)NCBImm8
Celera872,625,364 - 72,676,283 (-)NCBICelera
Cytogenetic Map8B3.3NCBI
cM Map834.15NCBI
NCAN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1919,211,958 - 19,252,233 (+)EnsemblGRCh38hg38GRCh38
GRCh381919,211,958 - 19,252,233 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371919,322,773 - 19,363,061 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361919,183,782 - 19,224,061 (+)NCBINCBI36hg18NCBI36
Build 341919,188,761 - 19,224,040NCBI
Celera1919,227,578 - 19,267,865 (+)NCBI
Cytogenetic Map19p13.11NCBI
HuRef1918,887,259 - 18,927,121 (+)NCBIHuRef
CHM1_11919,323,541 - 19,363,822 (+)NCBICHM1_1
Ncan
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01621,050,243 - 21,076,707 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1621,050,243 - 21,076,707 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,900,031 - 20,926,495 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,785,175 - 19,811,651 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1619,490,684 - 19,517,054 (+)NCBICelera
Cytogenetic Map16p14NCBI
Ncan
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555242,602,715 - 2,628,805 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555242,602,767 - 2,628,771 (-)NCBIChiLan1.0ChiLan1.0
NCAN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11919,652,839 - 19,694,317 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1919,657,766 - 19,691,998 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01918,650,522 - 18,690,882 (+)NCBIMhudiblu_PPA_v0panPan3
NCAN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2043,945,143 - 43,970,886 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12043,944,257 - 43,970,864 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ncan
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365962,190,593 - 2,218,963 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NCAN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl258,638,805 - 58,669,705 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1258,638,808 - 58,669,757 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
NCAN
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl617,686,410 - 17,712,349 (+)Ensembl
ChlSab1.1617,682,200 - 17,713,706 (+)NCBI
Ncan
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249082,102,445 - 2,125,820 (+)NCBI

Position Markers
BE136470  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38870,072,137 - 70,072,257UniSTSGRCm38
MGSCv37872,596,036 - 72,596,156UniSTSGRCm37
Celera872,632,185 - 72,632,305UniSTS
Cytogenetic Map8C1UniSTS
Cytogenetic Map8B3.3UniSTS
Whitehead/MRC_RH8741.8UniSTS
UniSTS:225364  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38870,095,689 - 70,095,863UniSTSGRCm38
MGSCv37872,619,588 - 72,619,762UniSTSGRCm37
Cytogenetic Map8B3.3UniSTS
Cspg3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38870,095,808 - 70,096,063UniSTSGRCm38
MGSCv37872,619,707 - 72,619,962UniSTSGRCm37
Cytogenetic Map8B3.3UniSTS
cM Map833.5UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81472316071045600Mouse
1357811Orq3_movulation rate QTL 3 (mouse)Not determined83201654471287993Mouse
4141437W10q14_mweight 10 weeks QTL 14 (mouse)Not determined3201654471287993Mouse
4141172W6q9_mweight 6 weeks QTL 9 (mouse)Not determined3201654471287993Mouse
4140966Egq12_mearly growth QTL 12 (mouse)Not determined3201654471287993Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83616300092728652Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)83970925694689598Mouse
1301544Iba3_minduction of brown adipocytes 3 (mouse)Not determined84429488078295025Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84763703081637146Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84763703081637146Mouse
1301441Skull11_mskull morphology 11 (mouse)Not determined84773713481737254Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84879293982793021Mouse
14746987Manh64_mmandible shape 64 (mouse)85005330684053306Mouse
14747005Mancz7_mmandible centroid size 7 (mouse)85005330684053306Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85188219185882191Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85428781788287993Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85470661488706763Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85554502889545028Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85820147992201479Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85840977692409776Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86078685094786976Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6346010797460107Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86393954797939696Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined86535776899357920Mouse
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined86560020799600347Mouse
10766466Char12_mP. chabaudi malaria resistance QTL 12 (mouse)86826982782600347Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1200
Count of miRNA genes:645
Interacting mature miRNAs:771
Transcripts:ENSMUST00000002412
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000002412   ⟹   ENSMUSP00000002412
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,093,085 - 70,120,873 (-)Ensembl
RefSeq Acc Id: NM_007789   ⟹   NP_031815
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39870,545,735 - 70,573,494 (-)NCBI
GRCm38870,093,085 - 70,120,844 (-)NCBI
MGSCv37872,616,984 - 72,644,743 (-)RGD
Celera872,625,364 - 72,676,283 (-)NCBI
cM Map8 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_031815 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH65118 (Get FASTA)   NCBI Sequence Viewer  
  BAC38458 (Get FASTA)   NCBI Sequence Viewer  
  CAA59216 (Get FASTA)   NCBI Sequence Viewer  
  P55066 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_031815   ⟸   NM_007789
- Peptide Label: precursor
- UniProtKB: P55066 (UniProtKB/Swiss-Prot),   A0A0R4IZX5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000002412   ⟸   ENSMUST00000002412
Protein Domains
C-type lectin   EGF-like   Ig-like   Ig-like V-type   Link   Sushi

Promoters
RGD ID:8667273
Promoter ID:EPDNEW_M11668
Type:initiation region
Name:Ncan_1
Description:Mus musculus neurocan , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38870,120,823 - 70,120,883EPDNEW
RGD ID:6843525
Promoter ID:MM_KWN:54661
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:OTTMUST00000052725
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36872,644,506 - 72,645,006 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:104694 AgrOrtholog
Ensembl Genes ENSMUSG00000002341 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000002412 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000002412 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.10.100.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CTDL_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_Ca-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Link_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi/SCR/CCP_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi_SCR_CCP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:13004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:104694 ENTREZGENE
NCBI Gene 13004 ENTREZGENE
Pfam EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lectin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Xlink UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ncan PhenoGen
PRINTS LINKMODULE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ASX_HYDROXYL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C_TYPE_LECTIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_CA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LINK_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LINK_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SUSHI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CCP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CLECT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_CA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LINK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56436 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57535 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Mm.268079 ENTREZGENE
UniProt A0A0R4IZX5 ENTREZGENE, UniProtKB/TrEMBL
  NCAN_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q6P1E3 UniProtKB/Swiss-Prot
  Q8C4F8 UniProtKB/Swiss-Prot