GPC1 (glypican 1) - Rat Genome Database

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Gene: GPC1 (glypican 1) Canis lupus familiaris
Analyze
Symbol: GPC1
Name: glypican 1
RGD ID: 12109412
Description: ENCODES a protein that exhibits collagen V binding (ortholog); INVOLVED IN myelin assembly (ortholog); Schwann cell differentiation (ortholog); PARTICIPATES IN glypican signaling pathway; Hedgehog signaling pathway; ASSOCIATED WITH Bethlem Myopathy 1 (ortholog); chromosome 2q37 deletion syndrome (ortholog); D-2-hydroxyglutaric aciduria 1 (ortholog); FOUND IN neuronal cell body (ortholog); synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: glypican-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12550,484,554 - 50,492,940 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2550,482,071 - 50,515,877 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2550,936,475 - 50,962,772 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02550,917,330 - 50,943,617 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2550,918,480 - 50,941,977 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12550,759,401 - 50,785,702 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02550,505,447 - 50,531,706 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02550,782,678 - 50,809,060 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
GPC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12550,484,554 - 50,492,940 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2550,482,071 - 50,515,877 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2550,936,475 - 50,962,772 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02550,917,330 - 50,943,617 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2550,918,480 - 50,941,977 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12550,759,401 - 50,785,702 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02550,505,447 - 50,531,706 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02550,782,678 - 50,809,060 (+)NCBIUU_Cfam_GSD_1.0
GPC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382240,435,663 - 240,468,076 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2240,435,663 - 240,468,076 (+)EnsemblGRCh38hg38GRCh38
GRCh372241,375,080 - 241,407,493 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362241,023,788 - 241,056,168 (+)NCBINCBI36Build 36hg18NCBI36
Build 342241,095,104 - 241,127,483NCBI
Celera2235,047,069 - 235,079,415 (+)NCBICelera
Cytogenetic Map2q37.3NCBI
HuRef2233,131,263 - 233,163,487 (+)NCBIHuRef
CHM1_12241,381,165 - 241,413,509 (+)NCBICHM1_1
T2T-CHM13v2.02240,929,356 - 240,961,704 (+)NCBIT2T-CHM13v2.0
Gpc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39192,759,367 - 92,787,933 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl192,759,367 - 92,788,501 (+)EnsemblGRCm39 Ensembl
GRCm38192,831,645 - 92,860,211 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl192,831,645 - 92,860,779 (+)EnsemblGRCm38mm10GRCm38
MGSCv37194,728,263 - 94,756,773 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36194,662,092 - 94,690,602 (+)NCBIMGSCv36mm8
Celera195,776,004 - 95,804,554 (+)NCBICelera
Cytogenetic Map1DNCBI
cM Map146.6NCBI
Gpc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89100,843,645 - 100,871,458 (+)NCBIGRCr8
mRatBN7.2993,396,234 - 93,424,047 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl993,396,234 - 93,424,047 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9101,832,104 - 101,859,907 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09106,967,887 - 106,995,694 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09105,324,039 - 105,351,842 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0999,998,275 - 100,026,818 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl999,998,275 - 100,026,818 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0999,664,180 - 99,692,723 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera990,933,123 - 90,960,752 (+)NCBICelera
Cytogenetic Map9q36NCBI
Gpc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955542947,556 - 968,295 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955542947,556 - 968,295 (-)NCBIChiLan1.0ChiLan1.0
GPC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213143,110,895 - 143,143,597 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B143,126,093 - 143,158,562 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B127,684,839 - 127,717,294 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B246,509,247 - 246,523,569 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B246,511,082 - 246,523,569 (+)Ensemblpanpan1.1panPan2
Gpc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303192,090,303 - 192,100,688 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367451,118,732 - 1,127,169 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15139,457,669 - 139,484,670 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115139,457,866 - 139,483,704 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215154,436,077 - 154,449,277 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GPC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110126,464,383 - 126,496,686 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10126,464,801 - 126,497,897 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604072,906,497 - 72,938,406 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gpc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248474,832,488 - 4,853,851 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248474,832,610 - 4,853,849 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in GPC1
283 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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 5 17 1 6 1 6 6 12 10 6
Low 5 5 5 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_022409807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038435984 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038435985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038458255 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038458256 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038510907 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038510908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038574406 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038574407 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038638632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038638633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSCAFT00000020095   ⟹   ENSCAFP00000018637
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2550,482,071 - 50,515,877 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845054340   ⟹   ENSCAFP00845042697
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2550,918,480 - 50,941,977 (+)Ensembl
RefSeq Acc Id: XM_038435984   ⟹   XP_038291912
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02550,918,980 - 50,943,617 (+)NCBI
RefSeq Acc Id: XM_038435985   ⟹   XP_038291913
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02550,917,330 - 50,943,617 (+)NCBI
RefSeq Acc Id: XM_038458255   ⟹   XP_038314183
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2550,938,119 - 50,962,772 (+)NCBI
RefSeq Acc Id: XM_038458256   ⟹   XP_038314184
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2550,936,475 - 50,962,772 (+)NCBI
RefSeq Acc Id: XM_038510907   ⟹   XP_038366835
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12550,761,069 - 50,785,702 (+)NCBI
RefSeq Acc Id: XM_038510908   ⟹   XP_038366836
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12550,759,401 - 50,785,702 (+)NCBI
RefSeq Acc Id: XM_038574406   ⟹   XP_038430334
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02550,784,364 - 50,809,060 (+)NCBI
RefSeq Acc Id: XM_038574407   ⟹   XP_038430335
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02550,782,678 - 50,809,060 (+)NCBI
RefSeq Acc Id: XM_038638632   ⟹   XP_038494560
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02550,507,107 - 50,531,706 (+)NCBI
RefSeq Acc Id: XM_038638633   ⟹   XP_038494561
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02550,505,447 - 50,531,706 (+)NCBI
RefSeq Acc Id: ENSCAFP00000018637   ⟸   ENSCAFT00000020095
RefSeq Acc Id: XP_038366836   ⟸   XM_038510908
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038366835   ⟸   XM_038510907
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038494561   ⟸   XM_038638633
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038494560   ⟸   XM_038638632
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038291913   ⟸   XM_038435985
- Peptide Label: isoform X2
- UniProtKB: A0A8C0TJV1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038291912   ⟸   XM_038435984
- Peptide Label: isoform X1
- UniProtKB: A0A8C0LLR2 (UniProtKB/TrEMBL),   A0A8C0TFT3 (UniProtKB/TrEMBL),   A0A8I3Q4U0 (UniProtKB/TrEMBL),   A0A8C0TJV1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038314184   ⟸   XM_038458256
- Peptide Label: isoform X2
- UniProtKB: A0A8C0TJV1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038314183   ⟸   XM_038458255
- Peptide Label: isoform X1
- UniProtKB: A0A8C0LLR2 (UniProtKB/TrEMBL),   A0A8C0TFT3 (UniProtKB/TrEMBL),   A0A8I3Q4U0 (UniProtKB/TrEMBL),   A0A8C0TJV1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038430335   ⟸   XM_038574407
- Peptide Label: isoform X2
- UniProtKB: A0A8C0TJV1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038430334   ⟸   XM_038574406
- Peptide Label: isoform X1
- UniProtKB: A0A8C0LLR2 (UniProtKB/TrEMBL),   A0A8C0TFT3 (UniProtKB/TrEMBL),   A0A8C0TJV1 (UniProtKB/TrEMBL),   A0A8I3Q4U0 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845042697   ⟸   ENSCAFT00845054340


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000012663 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00040022144 UniProtKB/TrEMBL
  ENSCAFG00845030628 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000020095.4 UniProtKB/TrEMBL
  ENSCAFT00000095237.1 UniProtKB/TrEMBL
  ENSCAFT00000095469.1 UniProtKB/TrEMBL
  ENSCAFT00000100777.1 UniProtKB/TrEMBL
  ENSCAFT00040041099.1 UniProtKB/TrEMBL
  ENSCAFT00040041153.1 UniProtKB/TrEMBL
  ENSCAFT00040041199.1 UniProtKB/TrEMBL
  ENSCAFT00845054340 ENTREZGENE
  ENSCAFT00845054340.1 UniProtKB/TrEMBL
InterPro Glypican UniProtKB/TrEMBL
  Glypican_CS UniProtKB/TrEMBL
NCBI Gene GPC1 ENTREZGENE
PANTHER PTHR10822 UniProtKB/TrEMBL
  PTHR10822:SF8 UniProtKB/TrEMBL
Pfam Glypican UniProtKB/TrEMBL
PROSITE GLYPICAN UniProtKB/TrEMBL
  PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
UniProt A0A8C0LLR2 ENTREZGENE
  A0A8C0TFT3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0THW2_CANLF UniProtKB/TrEMBL
  A0A8C0TJV1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3Q4U0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0PP94_CANLF UniProtKB/TrEMBL
  A0A8P0SH92_CANLF UniProtKB/TrEMBL
  A0A8P0TKQ7_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:49902 ENTREZGENE