Gpc6 (glypican 6) - Rat Genome Database

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Pathways
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Gene: Gpc6 (glypican 6) Chinchilla lanigera
Analyze
Symbol: Gpc6
Name: glypican 6
RGD ID: 8863634
Description: INVOLVED IN cell migration (ortholog); regulation of neurotransmitter receptor localization to postsynaptic specialization membrane (ortholog); PARTICIPATES IN Hedgehog signaling pathway; ASSOCIATED WITH Anal Atresia, Hypospadias, and Penoscrotal Inversion (ortholog); Congenital Limb Deformities (ortholog); Congenital Micromelic Dysplasia with Dislocation of Radius (ortholog); FOUND IN glutamatergic synapse (ortholog); synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: glypican-6
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540415,433,962 - 16,504,351 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540415,429,811 - 16,504,973 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Gpc6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540415,433,962 - 16,504,351 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540415,429,811 - 16,504,973 (-)NCBIChiLan1.0ChiLan1.0
GPC6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381393,216,529 - 94,408,020 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1393,226,807 - 94,408,020 (+)EnsemblGRCh38hg38GRCh38
GRCh371393,879,060 - 95,060,274 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361392,677,096 - 93,853,948 (+)NCBINCBI36Build 36hg18NCBI36
Build 341392,677,095 - 93,853,948NCBI
Celera1374,727,460 - 75,908,516 (+)NCBICelera
Cytogenetic Map13q31.3-q32.1NCBI
HuRef1374,476,112 - 75,657,237 (+)NCBIHuRef
CHM1_11393,848,682 - 95,029,827 (+)NCBICHM1_1
T2T-CHM13v2.01392,430,763 - 93,611,616 (+)NCBIT2T-CHM13v2.0
Gpc6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914117,162,332 - 118,216,941 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14117,162,727 - 118,213,956 (+)EnsemblGRCm39 Ensembl
GRCm3814116,924,920 - 117,979,529 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14116,925,315 - 117,976,544 (+)EnsemblGRCm38mm10GRCm38
MGSCv3714117,324,537 - 118,378,751 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3614115,808,387 - 116,859,339 (+)NCBIMGSCv36mm8
Celera14115,484,341 - 116,531,683 (+)NCBICelera
Cytogenetic Map14E4NCBI
cM Map1460.34NCBI
Gpc6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr815100,437,415 - 101,435,038 (+)NCBIGRCr8
mRatBN7.21594,030,218 - 95,027,883 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1594,029,884 - 95,024,006 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.015102,164,091 - 103,174,721 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15102,164,751 - 103,170,847 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015105,607,785 - 106,611,654 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415101,763,223 - 102,656,127 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1592,888,323 - 93,881,886 (+)NCBICelera
Cytogenetic Map15q24NCBI
GPC6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21494,764,666 - 95,943,637 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11393,433,119 - 94,612,958 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01374,408,999 - 75,588,065 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11393,556,152 - 94,744,052 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1393,874,849 - 94,739,894 (+)Ensemblpanpan1.1panPan2
GPC6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12244,154,690 - 45,237,398 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2244,154,944 - 45,233,549 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2244,008,265 - 45,024,162 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02244,583,937 - 45,667,974 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2244,584,263 - 45,667,325 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12244,239,373 - 45,321,705 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02244,280,456 - 45,362,460 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02244,290,207 - 45,372,251 (+)NCBIUU_Cfam_GSD_1.0
Gpc6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945179,774,517 - 180,818,680 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647215,137,770 - 16,176,943 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647215,136,656 - 16,177,597 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPC6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1162,438,453 - 63,560,897 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11162,436,143 - 63,560,908 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
GPC6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1372,075,622 - 73,242,678 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604628,496,652 - 29,624,562 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gpc6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462487997,257 - 1,192,604 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462487997,125 - 1,196,747 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005374116 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AGCD01003543 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003544 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003546 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003551 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003553 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003554 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003559 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01003561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GBCE01054960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCLAT00000006132   ⟹   ENSCLAP00000006029
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540415,433,962 - 16,504,351 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000006133   ⟹   ENSCLAP00000006030
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540415,433,962 - 16,504,351 (-)Ensembl
RefSeq Acc Id: XM_005374116   ⟹   XP_005374173
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540415,429,811 - 16,504,973 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005374173 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000006029.1
  ENSCLAP00000006030
  ENSCLAP00000006030.1
Reference Protein Sequences
RefSeq Acc Id: XP_005374173   ⟸   XM_005374116
- UniProtKB: A0A8C2UZN3 (UniProtKB/TrEMBL),   A0A8C2UX01 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000006030   ⟸   ENSCLAT00000006133
RefSeq Acc Id: ENSCLAP00000006029   ⟸   ENSCLAT00000006132


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000004267 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000006132.1 UniProtKB/TrEMBL
  ENSCLAT00000006133 ENTREZGENE
  ENSCLAT00000006133.1 UniProtKB/TrEMBL
InterPro Glypican UniProtKB/TrEMBL
  Glypican_CS UniProtKB/TrEMBL
NCBI Gene Gpc6 ENTREZGENE
PANTHER PTHR10822 UniProtKB/TrEMBL
  PTHR10822:SF31 UniProtKB/TrEMBL
Pfam Glypican UniProtKB/TrEMBL
PROSITE GLYPICAN UniProtKB/TrEMBL
UniProt A0A8C2UX01 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2UZN3 ENTREZGENE, UniProtKB/TrEMBL