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Analyze GeneStrainQTL List |
 Gene Annotator (Functional Annotation) unavailable |
 Gene Annotator (Annotation Distribution) unavailable |
 Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable |
Gene Annotator (Functional Annotation) |
Gene Annotator (Annotation Distribution) |
Variant Visualizer (Genomic Variants) |
 InterViewer (Protein-Protein Interactions) unavailable |
 Gviewer (Genome Viewer) unavailable |
 Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable |
InterViewer (Protein-Protein Interactions) |
GViewer (Genome Viewer) |
Variant Visualizer (Damaging Variants) |
 Gene Annotator (Annotation Comparison) unavailable |
 OLGA (Gene List Generator) unavailable |
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Gene Annotator (Annotation Comparison) |
OLGA (Gene List Generator) |
Excel (Download) |
 MOET (Multi-Ontology Enrichement) unavailable |
 GOLF (Gene-Ortholog Location Finder) unavailable |
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MOET (Multi-Ontology Enrichement) |
GOLF (Gene-Ortholog Location Finder) |
Imported Annotations - CTD | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Term | Qualifier | Evidence | With | Reference | Notes | Source | Original Reference(s) | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| bipolar disorder | ISO | RGD:1344259 | 11554173 | CTD Direct Evidence: marker/mechanism | CTD | PMID:31043756 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| urinary bladder cancer | ISO | RGD:1344259 | 11554173 | CTD Direct Evidence: marker/mechanism | CTD | PMID:26039340 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Gene-Chemical Interaction AnnotationsGene Ontology AnnotationsMolecular Pathway AnnotationsDisease Annotations
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Gene-Chemical Interaction Annotations
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Gene Ontology Annotations
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Molecular Pathway AnnotationsReferences - curated| 1. | Cheng D, etal., Mol Cell Proteomics. 2006 Jun;5(6):1158-70. doi: 10.1074/mcp.D500009-MCP200. Epub 2006 Feb 28. |
| 2. | Deepa SS, etal., J Biol Chem. 2006 Jun 30;281(26):17789-800. Epub 2006 Apr 27. |
| 3. | Engel M, etal., J Comp Neurol 1996 Feb 26;366(1):34-43. |
| 4. | Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27. |
| 5. | GOA data from the GO Consortium |
| 6. | Grumet M, etal., J Biol Chem 1994 Apr 22;269(16):12142-6. |
| 7. | Hobbs AA and Rosen JM, Nucleic Acids Res 1982 Dec 20;10(24):8079-98. |
| 8. | Matsui F, etal., Neuroscience 2002;112(4):773-81. |
| 9. | Meyer-Puttlitz B, etal., J Comp Neurol 1996 Feb 26;366(1):44-54. |
| 10. | MGD data from the GO Consortium |
| 11. | NCBI rat LocusLink and RefSeq merged data July 26, 2002 |
| 12. | Pipeline to import Pathway Interaction Database annotations from NCI into RGD |
| 13. | Prange CK, etal., Gene 1998 Oct 23;221(2):199-205. |
| 14. | Rauch U, etal., J Biol Chem 1992 Sep 25;267(27):19536-47. |
| 15. | RGD automated data pipeline |
| 16. | RGD automated import pipeline for gene-chemical interactions |
| 17. | Tang X, etal., J Neurosci Res 2003 Feb 1;71(3):427-44. |
References - uncurated| PubMed | 1907283 7513709 8910306 9182584 11486035 12573465 15062856 15632090 15777769 18618668 21107918 25597185 29476059 |
Comparative Map Data| Ncan (Rattus norvegicus - Norway rat) |
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| NCAN (Homo sapiens - human) |
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| Ncan (Mus musculus - house mouse) |
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| Ncan (Chinchilla lanigera - long-tailed chinchilla) |
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| NCAN (Pan paniscus - bonobo/pygmy chimpanzee) |
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| NCAN (Canis lupus familiaris - dog) |
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| Ncan (Ictidomys tridecemlineatus - thirteen-lined ground squirrel) |
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| NCAN (Sus scrofa - pig) |
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| NCAN (Chlorocebus sabaeus - African green monkey) |
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| Ncan (Heterocephalus glaber - naked mole-rat) |
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QTLs in Region (Rnor_6.0)| The following QTLs overlap with this region. |  | Full Report | | CSV | | TAB | | Printer | | Gviewer |
miRNA Target Status
| 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. |
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RNA-SEQ Expression| alimentary part of gastrointestinal system | circulatory system | endocrine system | exocrine system | hemolymphoid system | hepatobiliary system | integumental system | musculoskeletal system | nervous system | renal system | reproductive system | respiratory system | appendage | |
| High | |||||||||||||
| Medium | 72 | ||||||||||||
| Low | 1 | 2 | 1 | 15 | 1 | ||||||||
| Below cutoff | 2 | 7 | 21 | 8 | 12 | 8 | 5 | 7 | 12 | 24 | 8 | 5 |
Nucleotide Sequences| RefSeq Transcripts | NM_031653 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| GenBank Nucleotide | AAHX01086873 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| AAHX01086874 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| AAHX01086875 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| AC134063 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| AF060879 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| CH474031 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| M97161 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| RefSeq Acc Id: | ENSRNOT00000064308 ⟹ ENSRNOP00000062123 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000092136 ⟹ ENSRNOP00000073142 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | NM_031653 ⟹ NP_113841 | ||||||||||||||||||||
| RefSeq Status: | VALIDATED | ||||||||||||||||||||
| Type: | CODING | ||||||||||||||||||||
| Position: |
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| Sequence: |
AACACCGGAGCCAGGCGTCGCGTCCTTTGTGCCCGGAACCGTGGGGATGTGTCCGCGCTAAGGAhide sequence |
Protein Sequences| Protein RefSeqs | NP_113841 | (Get FASTA) | NCBI Sequence Viewer |
| GenBank Protein | AAC15766 | (Get FASTA) | NCBI Sequence Viewer |
| AAC37679 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL90647 | (Get FASTA) | NCBI Sequence Viewer | |
| P55067 | (Get FASTA) | NCBI Sequence Viewer |
| RefSeq Acc Id: | NP_113841 ⟸ NM_031653 |
| - Peptide Label: | precursor |
| - UniProtKB: | G3V8R2 (UniProtKB/TrEMBL) |
| - Sequence: |
MGAESVWASGLLVLWLLLLVSGDQDTQDTTTTEKGLHMLKSGSGPIQAALAELVALPCFFTLQPhide sequence |
| RefSeq Acc Id: | ENSRNOP00000073142 ⟸ ENSRNOT00000092136 |
| RefSeq Acc Id: | ENSRNOP00000062123 ⟸ ENSRNOT00000064308 |
TranscriptomePromoters| RGD ID: | 13700045 | ||||||||
| Promoter ID: | EPDNEW_R10569 | ||||||||
| Type: | single initiation site | ||||||||
| Name: | Ncan_1 | ||||||||
| Description: | neurocan | ||||||||
| SO ACC ID: | SO:0000170 | ||||||||
| Source: | EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/) | ||||||||
| Experiment Methods: | Single-end sequencing. | ||||||||
| Position: |
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Strain Sequence Variants (Rnor 6.0)
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External Database Links| Database | Acc Id | Source(s) |
| AGR Gene | RGD:619941 | AgrOrtholog |
| Ensembl Genes | ENSRNOG00000048036 | Ensembl, ENTREZGENE, UniProtKB/TrEMBL |
| Ensembl Protein | ENSRNOP00000062123 | ENTREZGENE, UniProtKB/TrEMBL |
| ENSRNOP00000073142 | UniProtKB/TrEMBL | |
| Ensembl Transcript | ENSRNOT00000064308 | ENTREZGENE, UniProtKB/TrEMBL |
| ENSRNOT00000092136 | 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_CS | 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 | rno:58982 | UniProtKB/TrEMBL |
| NCBI Gene | 58982 | 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 | Rn.10177 | ENTREZGENE |
| UniProt | A0A0G2K4R4_RAT | UniProtKB/TrEMBL |
| G3V8R2 | ENTREZGENE, UniProtKB/TrEMBL | |
| NCAN_RAT | UniProtKB/Swiss-Prot, ENTREZGENE | |
| UniProt Secondary | F1LNN7 | UniProtKB/TrEMBL |
Nomenclature History| Date | Current Symbol | Current Name | Previous Symbol | Previous Name | Description | Reference | Status |
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| 2013-04-17 | Ncan | neurocan | LOC100911345 | neurocan core protein-like | Data Merged | 737654 | PROVISIONAL |
| 2012-07-05 | LOC100911345 | neurocan core protein-like | Symbol and Name status set to provisional | 70820 | PROVISIONAL | ||
| 2008-02-22 | Ncan | neurocan | Cspg3 | chondroitin sulfate proteoglycan 3 | Nomenclature updated to reflect human and mouse nomenclature | 1299863 | APPROVED |
| 2005-01-20 | Cspg3 | chondroitin sulfate proteoglycan 3 | Symbol and Name status set to approved | 1299863 | APPROVED | ||
| 2002-08-07 | Cspg3 | chondroitin sulfate proteoglycan 3 | Symbol and Name status set to provisional | 70820 | PROVISIONAL |
RGD Curation Notes| Note Type | Note | Reference |
|---|---|---|
| gene_expression | expressed in brain and displays developmental regulation | 728116 |
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| More on Ncan | |
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Alliance Gene |
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NCBI Gene |
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Ensembl Gene |
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JBrowse: rn5 rn6 |
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NCBI Genome Data Viewer |
| RGD Object Information | |
| RGD ID: | 619941 |
| Created: | 2002-08-06 |
| Species: | Rattus norvegicus |
| Last Modified: | 2020-08-20 |
| Status: | ACTIVE |
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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.
