CSPG5 (chondroitin sulfate proteoglycan 5) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: CSPG5 (chondroitin sulfate proteoglycan 5) Chlorocebus sabaeus
Analyze
Symbol: CSPG5
Name: chondroitin sulfate proteoglycan 5
RGD ID: 18500516
Description: INVOLVED IN axon regeneration (ortholog); cytoskeleton organization (ortholog); glial cell projection elongation (ortholog); ASSOCIATED WITH genetic disease (ortholog); Progressive Microcephaly with Seizures and Cerebral and Cerebellar Atrophy (ortholog); FOUND IN GABA-ergic synapse (ortholog); glutamatergic synapse (ortholog); Golgi apparatus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
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
ChlSab1.1228,963,493 - 8,982,308 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl228,963,676 - 8,980,225 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041158,141,489 - 158,160,497 (+)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

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
CSPG5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1228,963,493 - 8,982,308 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl228,963,676 - 8,980,225 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041158,141,489 - 158,160,497 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CSPG5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38347,562,238 - 47,580,240 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl347,562,238 - 47,580,792 (-)EnsemblGRCh38hg38GRCh38
GRCh37347,603,728 - 47,621,730 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36347,578,732 - 47,595,363 (-)NCBINCBI36Build 36hg18NCBI36
Build 34347,578,732 - 47,595,193NCBI
Celera347,545,497 - 47,562,148 (-)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef347,649,609 - 47,667,613 (-)NCBIHuRef
CHM1_1347,553,635 - 47,571,723 (-)NCBICHM1_1
T2T-CHM13v2.0347,581,316 - 47,599,318 (-)NCBIT2T-CHM13v2.0
Cspg5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399110,072,851 - 110,091,644 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9110,072,851 - 110,091,644 (+)EnsemblGRCm39 Ensembl
GRCm389110,243,783 - 110,262,576 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9110,243,783 - 110,262,576 (+)EnsemblGRCm38mm10GRCm38
MGSCv379110,146,287 - 110,165,080 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369110,090,627 - 110,107,752 (+)NCBIMGSCv36mm8
Celera9109,972,242 - 109,991,159 (+)NCBICelera
Cytogenetic Map9F2NCBI
cM Map959.89NCBI
Cspg5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88119,098,932 - 119,113,191 (+)NCBIGRCr8
mRatBN7.28110,220,506 - 110,234,766 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8110,220,653 - 110,234,758 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8115,836,168 - 115,850,256 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08114,035,357 - 114,049,445 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08111,878,144 - 111,892,232 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08118,333,695 - 118,348,040 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8118,333,706 - 118,347,582 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08117,686,012 - 117,699,639 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48114,621,534 - 114,635,336 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18114,640,987 - 114,654,786 (+)NCBI
Celera8109,507,895 - 109,521,130 (+)NCBICelera
Cytogenetic Map8q32NCBI
Cspg5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542024,734,561 - 24,747,414 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542024,735,155 - 24,746,580 (+)NCBIChiLan1.0ChiLan1.0
CSPG5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2247,520,542 - 47,537,132 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1347,525,309 - 47,541,900 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0347,464,341 - 47,482,910 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1348,563,837 - 48,579,593 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl348,564,199 - 48,580,048 (-)Ensemblpanpan1.1panPan2
CSPG5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12041,344,098 - 41,356,810 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2041,344,093 - 41,356,800 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2041,259,864 - 41,288,755 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02041,826,723 - 41,855,158 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2041,826,723 - 41,839,797 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12041,068,831 - 41,097,249 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02041,469,308 - 41,498,069 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02041,750,035 - 41,778,891 (+)NCBIUU_Cfam_GSD_1.0
Cspg5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118201,686,474 - 201,700,710 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365961,235,545 - 1,251,166 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365961,235,550 - 1,251,100 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CSPG5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1330,387,224 - 30,411,850 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11330,387,225 - 30,404,181 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21333,636,335 - 33,642,435 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Cspg5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473073,861,847 - 73,873,521 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473073,860,578 - 73,871,515 (+)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 16 56
Low 19 17 4
Below cutoff 1 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000014079   ⟹   ENSCSAP00000012059
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl228,963,676 - 8,980,225 (-)Ensembl
RefSeq Acc Id: XM_007984067   ⟹   XP_007982258
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1228,963,493 - 8,982,308 (-)NCBI
Vero_WHO_p1.0NW_023666041158,141,489 - 158,160,496 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007984068   ⟹   XP_007982259
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1228,963,493 - 8,982,308 (-)NCBI
Vero_WHO_p1.0NW_023666041158,141,489 - 158,160,497 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007984069   ⟹   XP_007982260
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1228,963,493 - 8,979,805 (-)NCBI
Vero_WHO_p1.0NW_023666041158,143,984 - 158,160,496 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007982258 (Get FASTA)   NCBI Sequence Viewer  
  XP_007982259 (Get FASTA)   NCBI Sequence Viewer  
  XP_007982260 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000012059
  ENSCSAP00000012059.1
Reference Protein Sequences
RefSeq Acc Id: XP_007982259   ⟸   XM_007984068
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007982258   ⟸   XM_007984067
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RTX0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982260   ⟸   XM_007984069
- Peptide Label: isoform X3
RefSeq Acc Id: ENSCSAP00000012059   ⟸   ENSCSAT00000014079


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000015996 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000014079.1 UniProtKB/TrEMBL
InterPro CSPG5 UniProtKB/TrEMBL
  CSPG5_S_attach_dom UniProtKB/TrEMBL
  Neural_ProG_Cyt UniProtKB/TrEMBL
KEGG Report csab:103227567 UniProtKB/TrEMBL
NCBI Gene CSPG5 ENTREZGENE
PANTHER CHONDROITIN SULFATE PROTEOGLYCAN 5 UniProtKB/TrEMBL
  PTHR15381 UniProtKB/TrEMBL
Pfam Chon_Sulph_att UniProtKB/TrEMBL
  Neural_ProG_Cyt UniProtKB/TrEMBL
UniProt A0A0D9RTX0 ENTREZGENE, UniProtKB/TrEMBL