NCAN (neurocan) - Rat Genome Database

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Pathways
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Gene: NCAN (neurocan) Chlorocebus sabaeus
Analyze
Symbol: NCAN
Name: neurocan
RGD ID: 18721819
Description: ENCODES a protein that exhibits calcium ion binding (inferred); carbohydrate binding (inferred); hyaluronic acid binding (inferred); INVOLVED IN modulation of chemical synaptic transmission (ortholog); regulation of postsynapse organization (ortholog); regulation of synapse structural plasticity (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH bipolar disorder (ortholog); dyslexia (ortholog); genetic disease (ortholog); FOUND IN GABA-ergic synapse (ortholog); glutamatergic synapse (ortholog); perineuronal net (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: neurocan core protein
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1617,682,200 - 17,713,706 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl617,686,410 - 17,712,349 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660741,589,958 - 1,630,428 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:21976490   PMID:22301074  


Genomics

Comparative Map Data
NCAN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1617,682,200 - 17,713,706 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl617,686,410 - 17,712,349 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660741,589,958 - 1,630,428 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
NCAN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381919,211,958 - 19,252,233 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1919,211,958 - 19,252,233 (+)EnsemblGRCh38hg38GRCh38
GRCh371919,322,767 - 19,363,042 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361919,183,782 - 19,224,061 (+)NCBINCBI36Build 36hg18NCBI36
Build 341919,188,761 - 19,224,040NCBI
Celera1919,227,578 - 19,267,865 (+)NCBICelera
Cytogenetic Map19p13.11NCBI
HuRef1918,887,259 - 18,927,121 (+)NCBIHuRef
CHM1_11919,323,541 - 19,363,822 (+)NCBICHM1_1
T2T-CHM13v2.01919,349,378 - 19,389,681 (+)NCBIT2T-CHM13v2.0
Ncan
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,545,735 - 70,573,494 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl870,545,735 - 70,573,523 (-)EnsemblGRCm39 Ensembl
GRCm38870,093,085 - 70,120,863 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,093,085 - 70,120,873 (-)EnsemblGRCm38mm10GRCm38
MGSCv37872,616,984 - 72,644,743 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36873,022,074 - 73,049,799 (-)NCBIMGSCv36mm8
MGSCv36869,493,766 - 69,521,494 (-)NCBIMGSCv36mm8
Celera872,625,364 - 72,676,283 (-)NCBICelera
Cytogenetic Map8B3.3NCBI
cM Map834.15NCBI
Ncan
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81619,335,907 - 19,362,371 (+)NCBIGRCr8
mRatBN7.21619,301,969 - 19,328,436 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1619,301,969 - 19,328,436 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1619,341,911 - 19,368,375 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01620,474,030 - 20,500,314 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01619,394,880 - 19,421,346 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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
NHGRI_mPanPan1-v22024,074,594 - 24,114,955 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11923,080,898 - 23,121,256 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01918,650,522 - 18,690,882 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11919,652,839 - 19,694,317 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1919,657,766 - 19,691,998 (+)Ensemblpanpan1.1panPan2
NCAN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12043,944,257 - 43,970,864 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2043,945,143 - 43,970,886 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2043,861,374 - 43,887,972 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02044,432,151 - 44,458,987 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2044,432,159 - 44,458,951 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12043,669,443 - 43,696,090 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02044,079,265 - 44,105,873 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02044,354,579 - 44,381,189 (-)NCBIUU_Cfam_GSD_1.0
Ncan
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118202,642,791 - 202,669,871 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365962,189,838 - 2,218,987 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365962,190,593 - 2,218,963 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NCAN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl258,638,808 - 58,674,130 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1258,638,808 - 58,669,757 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Ncan
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249082,102,445 - 2,125,820 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 40
Low 9 11 9
Below cutoff 11 6 11

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000003196   ⟹   ENSCSAP00000001484
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl617,686,410 - 17,712,349 (+)Ensembl
RefSeq Acc Id: XM_037992228   ⟹   XP_037848156
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660741,589,958 - 1,630,428 (-)NCBI
RefSeq Acc Id: XM_037992229   ⟹   XP_037848157
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660741,589,958 - 1,630,428 (-)NCBI
RefSeq Acc Id: XM_037992230   ⟹   XP_037848158
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660741,589,958 - 1,630,428 (-)NCBI
Protein Sequences
Protein RefSeqs XP_037848156 (Get FASTA)   NCBI Sequence Viewer  
  XP_037848157 (Get FASTA)   NCBI Sequence Viewer  
  XP_037848158 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000001484.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000001484   ⟸   ENSCSAT00000003196
RefSeq Acc Id: XP_037848157   ⟸   XM_037992229
- Peptide Label: isoform X2
- UniProtKB: A0A0D9QYP5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037848158   ⟸   XM_037992230
- Peptide Label: isoform X3
- UniProtKB: A0A0D9QYP5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037848156   ⟸   XM_037992228
- Peptide Label: isoform X1
- UniProtKB: A0A0D9QYP5 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000005190 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000003196.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.10.100.10 UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/TrEMBL
  CTDL_fold UniProtKB/TrEMBL
  EGF-like_Ca-bd_dom UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  Link_dom UniProtKB/TrEMBL
NCBI Gene NCAN ENTREZGENE
PANTHER AGGRECAN/VERSICAN PROTEOGLYCAN UniProtKB/TrEMBL
  NEUROCAN CORE PROTEIN UniProtKB/TrEMBL
Pfam EGF UniProtKB/TrEMBL
  Lectin_C UniProtKB/TrEMBL
  V-set UniProtKB/TrEMBL
  Xlink UniProtKB/TrEMBL
PRINTS LINKMODULE UniProtKB/TrEMBL
PROSITE ASX_HYDROXYL UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/TrEMBL
  EGF_1 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  IG_LIKE UniProtKB/TrEMBL
  LINK_1 UniProtKB/TrEMBL
  LINK_2 UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
  EGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  LINK UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP EGF/Laminin UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
  SSF56436 UniProtKB/TrEMBL
UniProt A0A0D9QYP5 ENTREZGENE, UniProtKB/TrEMBL