CSPG5 (chondroitin sulfate proteoglycan 5) - Rat Genome Database

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Gene: CSPG5 (chondroitin sulfate proteoglycan 5) Sus scrofa
Analyze
Symbol: CSPG5
Name: chondroitin sulfate proteoglycan 5
RGD ID: 14163683
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); postsynaptic membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
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
(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
(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
(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
(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

Variants

.
Variants in CSPG5
363 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 13
Low 1 3 2 10 1
Below cutoff 10 3 3 2 2 2 3

Sequence


RefSeq Acc Id: ENSSSCT00000041596   ⟹   ENSSSCP00000042557
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1330,387,235 - 30,411,850 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000051770   ⟹   ENSSSCP00000043854
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1330,387,235 - 30,404,210 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000058792   ⟹   ENSSSCP00000049417
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1330,387,224 - 30,404,223 (-)Ensembl
RefSeq Acc Id: XM_021068732   ⟹   XP_020924391
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11330,387,225 - 30,404,177 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021068733   ⟹   XP_020924392
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11330,387,225 - 30,404,181 (-)NCBI
Sequence:
RefSeq Acc Id: XP_020924392   ⟸   XM_021068733
- Peptide Label: isoform X2
- UniProtKB: A0A480MT87 (UniProtKB/TrEMBL),   A0A287AZ29 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020924391   ⟸   XM_021068732
- Peptide Label: isoform X1
- UniProtKB: A0A287AWX5 (UniProtKB/TrEMBL),   A0A8D1QU14 (UniProtKB/TrEMBL),   A0A287AIY6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000049417   ⟸   ENSSSCT00000058792
RefSeq Acc Id: ENSSSCP00000042557   ⟸   ENSSSCT00000041596
RefSeq Acc Id: ENSSSCP00000043854   ⟸   ENSSSCT00000051770

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000039224 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005030975 UniProtKB/TrEMBL
  ENSSSCG00025004532 UniProtKB/TrEMBL
  ENSSSCG00030043036 UniProtKB/TrEMBL
  ENSSSCG00035066919 UniProtKB/TrEMBL
  ENSSSCG00040046477 UniProtKB/TrEMBL
  ENSSSCG00045018465 UniProtKB/TrEMBL
  ENSSSCG00050039030 UniProtKB/TrEMBL
  ENSSSCG00055014375 UniProtKB/TrEMBL
  ENSSSCG00060020280 UniProtKB/TrEMBL
  ENSSSCG00065003283 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000041596.3 UniProtKB/TrEMBL
  ENSSSCT00000051770 ENTREZGENE
  ENSSSCT00000051770.2 UniProtKB/TrEMBL
  ENSSSCT00000058792 ENTREZGENE
  ENSSSCT00000058792.2 UniProtKB/TrEMBL
  ENSSSCT00005049386.1 UniProtKB/TrEMBL
  ENSSSCT00005049438.1 UniProtKB/TrEMBL
  ENSSSCT00005049471.1 UniProtKB/TrEMBL
  ENSSSCT00025006080.1 UniProtKB/TrEMBL
  ENSSSCT00025006083.1 UniProtKB/TrEMBL
  ENSSSCT00025006086.1 UniProtKB/TrEMBL
  ENSSSCT00025006091.1 UniProtKB/TrEMBL
  ENSSSCT00025006102.1 UniProtKB/TrEMBL
  ENSSSCT00030059984.1 UniProtKB/TrEMBL
  ENSSSCT00030060001.1 UniProtKB/TrEMBL
  ENSSSCT00030060017.1 UniProtKB/TrEMBL
  ENSSSCT00030060045.1 UniProtKB/TrEMBL
  ENSSSCT00030060097.1 UniProtKB/TrEMBL
  ENSSSCT00035090225.1 UniProtKB/TrEMBL
  ENSSSCT00035090241.1 UniProtKB/TrEMBL
  ENSSSCT00035090255.1 UniProtKB/TrEMBL
  ENSSSCT00035090283.1 UniProtKB/TrEMBL
  ENSSSCT00035090313.1 UniProtKB/TrEMBL
  ENSSSCT00040062571.1 UniProtKB/TrEMBL
  ENSSSCT00040062597.1 UniProtKB/TrEMBL
  ENSSSCT00040062630.1 UniProtKB/TrEMBL
  ENSSSCT00040062654.1 UniProtKB/TrEMBL
  ENSSSCT00040062866.1 UniProtKB/TrEMBL
  ENSSSCT00045031456.1 UniProtKB/TrEMBL
  ENSSSCT00045031517.1 UniProtKB/TrEMBL
  ENSSSCT00045031590.1 UniProtKB/TrEMBL
  ENSSSCT00045031638.1 UniProtKB/TrEMBL
  ENSSSCT00045031720.1 UniProtKB/TrEMBL
  ENSSSCT00050052644.1 UniProtKB/TrEMBL
  ENSSSCT00050052649.1 UniProtKB/TrEMBL
  ENSSSCT00050052652.1 UniProtKB/TrEMBL
  ENSSSCT00050052658.1 UniProtKB/TrEMBL
  ENSSSCT00050052667.1 UniProtKB/TrEMBL
  ENSSSCT00055028385.1 UniProtKB/TrEMBL
  ENSSSCT00055028491.1 UniProtKB/TrEMBL
  ENSSSCT00055028555.1 UniProtKB/TrEMBL
  ENSSSCT00055028586.1 UniProtKB/TrEMBL
  ENSSSCT00060027427.1 UniProtKB/TrEMBL
  ENSSSCT00060027430.1 UniProtKB/TrEMBL
  ENSSSCT00060027435.1 UniProtKB/TrEMBL
  ENSSSCT00060027438.1 UniProtKB/TrEMBL
  ENSSSCT00065004408.1 UniProtKB/TrEMBL
  ENSSSCT00065004414.1 UniProtKB/TrEMBL
  ENSSSCT00065004420.1 UniProtKB/TrEMBL
  ENSSSCT00065004429.1 UniProtKB/TrEMBL
InterPro CSPG5 UniProtKB/TrEMBL
  CSPG5_S_attach_dom UniProtKB/TrEMBL
  Neural_ProG_Cyt 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 A0A287AIY6 ENTREZGENE, UniProtKB/TrEMBL
  A0A287AWX5 ENTREZGENE, UniProtKB/TrEMBL
  A0A287AZ29 ENTREZGENE, UniProtKB/TrEMBL
  A0A480MT87 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0JMK9_PIG UniProtKB/TrEMBL
  A0A8D0JQN4_PIG UniProtKB/TrEMBL
  A0A8D0LSQ0_PIG UniProtKB/TrEMBL
  A0A8D1ER53_PIG UniProtKB/TrEMBL
  A0A8D1HQ82_PIG UniProtKB/TrEMBL
  A0A8D1QU14 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A287AFE2 UniProtKB/TrEMBL
VGNC ID VGNC:87044 ENTREZGENE