Gpc2 (glypican 2) - Rat Genome Database

Name: Gpc2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Gpc2 (glypican 2) Chinchilla lanigera

Analyze

Symbol:

Gpc2

Name:

glypican 2

RGD ID:

8870751

Description:

INVOLVED IN neuron differentiation (ortholog); positive regulation of neuron projection development (ortholog); smoothened signaling pathway (ortholog); PARTICIPATES IN glypican signaling pathway; Hedgehog signaling pathway; ASSOCIATED WITH genetic disease (ortholog); pleomorphic xanthoastrocytoma (ortholog); FOUND IN endoplasmic reticulum (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

glypican-2

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	GPC2 (glypican 2)	NCBI	Ortholog
Mus musculus (house mouse):	Gpc2 (glypican 2 cerebroglycan)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Gpc2 (glypican 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	GPC2 (glypican 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	GPC2 (glypican 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Gpc2 (glypican 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	GPC2 (glypican 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	GPC2 (glypican 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Gpc2 (glypican 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955573	630,859 - 637,296 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955573	630,859 - 637,296 (+)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

pleomorphic xanthoastrocytoma (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

neuron differentiation (ISO)

positive regulation of neuron projection development (ISO)

smoothened signaling pathway (ISO)

Cellular Component

endoplasmic reticulum (ISO)

Molecular Function

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

glypican signaling pathway (ISO)

Hedgehog signaling pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Gpc2
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955573	630,859 - 637,296 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955573	630,859 - 637,296 (+)	NCBI	ChiLan1.0	ChiLan1.0

GPC2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	100,169,606 - 100,177,381 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	100,169,606 - 100,177,381 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	99,767,229 - 99,775,004 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	99,605,165 - 99,612,926 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	7	99,411,879 - 99,419,641	NCBI
Celera	7	94,502,575 - 94,510,340 (-)	NCBI		Celera
Cytogenetic Map	7	q22.1	NCBI
HuRef	7	94,402,023 - 94,409,735 (-)	NCBI		HuRef
CHM1_1	7	99,697,303 - 99,705,068 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	7	101,409,400 - 101,417,191 (-)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	99,127,317 - 99,135,078 (-)	NCBI

Gpc2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	138,271,918 - 138,278,288 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	138,271,917 - 138,278,267 (-)	Ensembl		GRCm39 Ensembl
GRCm38	5	138,273,657 - 138,280,026 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	138,273,655 - 138,280,005 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	138,714,888 - 138,721,165 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	138,503,448 - 138,509,725 (-)	NCBI		MGSCv36	mm8
Celera	5	135,256,511 - 135,262,788 (-)	NCBI		Celera
Cytogenetic Map	5	G2	NCBI
cM Map	5	77.0	NCBI

Gpc2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	22,391,489 - 22,397,822 (-)	NCBI		GRCr8
mRatBN7.2	12	17,277,875 - 17,284,297 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	17,277,875 - 17,284,208 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	18,244,924 - 18,251,250 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	18,868,646 - 18,874,972 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	17,922,063 - 17,928,389 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	19,593,041 - 19,599,374 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	19,593,041 - 19,599,374 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	21,649,636 - 21,655,969 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	17,858,354 - 17,864,687 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	17,847,875 - 17,854,209 (-)	NCBI
Celera	12	19,202,336 - 19,208,665 (-)	NCBI		Celera
Cytogenetic Map	12	q11	NCBI

GPC2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	6	118,088,532 - 118,096,221 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	166,353,164 - 166,363,059 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	92,204,355 - 92,213,750 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	105,637,059 - 105,645,115 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	105,637,682 - 105,644,888 (-)	Ensembl	panpan1.1		panPan2

GPC2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	9,354,181 - 9,361,361 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	6	9,354,535 - 9,361,375 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	11,057,530 - 11,065,347 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	9,287,230 - 9,295,035 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	6	9,288,223 - 9,295,049 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	6	9,139,687 - 9,147,491 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	9,118,759 - 9,126,553 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	9,299,810 - 9,307,638 (+)	NCBI		UU_Cfam_GSD_1.0

Gpc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024409344	133,606,525 - 133,612,846 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936543	424,319 - 429,903 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936543	424,244 - 429,903 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

GPC2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	8,169,343 - 8,175,580 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	8,169,229 - 8,175,848 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	7,346,211 - 7,352,851 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

GPC2
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	28	12,892,092 - 12,899,288 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	28	12,892,057 - 12,898,657 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666070	3,381,153 - 3,388,396 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Gpc2
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624740	16,734,526 - 16,740,841 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624740	16,734,407 - 16,740,845 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_013509490	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01074994	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01074995	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCE01101814	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000001703 ⟹ ENSCLAP00000001660

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955573	630,859 - 637,296 (+)	Ensembl

RefSeq Acc Id:

XM_013509490 ⟹ XP_013364944

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955573	630,859 - 637,296 (+)	NCBI

Sequence:

show sequence

TGTCCCAGAGAGACTGTACCTATGTCTGCGCTGCGACCTCTCCTGCTTCTGCTGCTGCCTCTGT
GTCCCGGTCCTGGACTGGGACCCGGGAGCGAGGCAAAGGTCACCAGGAGTTGTGCAGAGACCCG
ACAAGTGCTGGGGGCCCGGGGATATAGTTTAAATCTAATCCCTCCCGCCCTGATCTCAGGCGAG
CACCTCCAGATCTGTCCCCAGGAGTACACCTGCTGTTCCAGTGAGACAGAGCAGAAGCTGATCA
GGGAGGCTGAGGCCACCTTCCGGGGCCTGGTGGAGGACAGTGGCTCCTTCCTGGTTCACACACT
GGCTGCCCGGCACAGAAAGTTTAATGAGTTTTTTCGGGAGATGCTTTCTGTATCCCAGCAATCC
TTGGCCCAGCTCTTCTCGCACTCCTATGGCCGCCTGTATTCCCAGCACGCCCTCGTCTTCAACG
GCCTGTTCTCTCGCCTGCGGGACTACTATGAGAAGTCTGGTGAGGGGCTAGATGACACCTTGTC
GGATTTCTGGGCACAGCTCCTGGAGAGAGCTTTCCCCCTGCTCCACCCACAGTACAGCTTCCCC
CCTGACTTCCTGCTCTGCCTCACACGCCTCACTTCGACCACTGAAGGCTCTCTGCAGCCCTTCG
GGGACTCACCCCGTCGCCTCCGCCTACAGATAACCCGGGCTCTGGTGGCTGCCAAGGCCTTTGT
CCAGGGCCTGGAGACTGGAAGAAGTGTGGTCAGTGAAACACTTAAGGTGCCTGTGTCTGAAGGT
TGCCGGCAGGCTCTGATGCGTCTGACTGGATGCCCCCTTTGCCGGGGCGTTCCCTCACTCATGC
CCTGCCGGGGCTTCTGCCTCAACGTGGCCCACGGCTGTCTCAGCAGCAAGGGACTGGAGCCTGA
CTGGGGCAGCTATCTGGATGGTCTCTTGCTCCTGGCTGAGAAGCTCCAGGGGCCCTTTTCCTTT
GAGCTGGCTGCTGAGTCCATTGGGGTGAAGATCTCAGAGGGTTTGATGTATTTGCAGGAAAACA
GTGTGAAGGTGTCAGCCAAGGCGTTTCAGGAATGCGGGACTCCCCACCCAGTGCCTGCCCGCCA
CCGCCGAGCGCCGGCGCCCCGGGAAGAGGCAGGCCGACCGTGGAGGGCGGCGGCCGAGGAGGAG
CGGCCCACGACAGCGGCAGGCACCAACTTGCACCGGCTGGTTTGGGAGCTTCGCGAGCGGCTAG
GCCGGGTGCGAGGCTTCTGGGCCGGGCTGCCCCTGACGGTGTGTGGGGACTCCCGCATGGCCGC
GGACGTCTCGCAGGAGGCGGCGCCCTGCTGGACTGGCGTTGGGCGAGGCCGGTACCTGCAGCCG
GTGGTCGGGGCCTCCCCGACCGAGCAGCTCCACAACCCCGAGCTGGATGTGGATGTCTCGGGCC
CGGACGTCCTCACGCGCCGCCGTAGGCTGCAGCTCCGCGCGGCCACTGCCAGGATGAGGGCTGC
GGCGCTGGGCCAGGACCTAGACAAGCGTGATGCAGATGAGGATGCTAGTGGCTCTGGAGGGGGA
CAGCAGTATGCAGATGACTGGAAGGCTGGGACAGCGCCGGTGGCCCCCCCAGCCCGGCCCCCAA
GGCCCCCGCGCCCTCCTCGCAGGGAAGGTCCTGGCGGCAAAGGCGGAGGTGGCAGCACTCGCTA
CAACCAAGGCAGGAGCAGGAGTGGGGTGACATCTGTTGCTCTTCACACCCCGCCTGTCTTCATT
CTGTTCTCTTCAGCCCTGGCTCTGCTTGGACCTCGATAACCCGGGAAGGGTGCCCTAGCATCAG
AAGGAGTAACAGCCGGTTCACTTCCTCTCCCTTCAGCTGGGTCTGGGGCGGGAGGAGTCGAAGG
GGCTGCAGAGAGGGTGGAAAAGGGACTTTGCAGGTGAATGGCTGGGGCCCCACATCCAGGAGAT
TCCCATCGGTGGGCTGGGGCTGAGTGGGTGTTCACAGTATTTATTTTTTCATTTGGTAACTGGG
GAGGAGGTGCTGGGGTATTTATTTTAGGAAGGAAGTGTGGTTTCAGCTCTCTAAGGCTGAGTGC
CGATCATCAGCTCCAATAAGGGGAAAAGGGAGGAATTTTAGAGTTGCCATAGGGGAATGGGCCG
AAGGAATTTGGAATTGGGGAAGGGTGGAACGGTAATGGGGTGGGGCACCTGGTCTCAGAAGTGG
ACAGAGCTGGGTGCTAATGGGGTGCAGGGCGGGGGCTGGGAGTGTGTGAGTAGGCTGTGTGACC
CAATGGGCGTGGGTTCTGTTGAGTTCTGTCAGGATCAATTTTAAAAAGAGGGGCTTATCTCACG
CCCTCTGCCATCTACATCCTTCACAAGCTCCCATTCATGTTTCGGTGTTTGAGTCAGTGTTTAT
TCGTAAATAAATGTTAATTTATTGGACCGTG

hide sequence

Protein Sequences


Protein RefSeqs	XP_013364944	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000001660
	ENSCLAP00000001660.1

RefSeq Acc Id:

XP_013364944 ⟸ XM_013509490

- UniProtKB:

A0A8C2ULV6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSALRPLLLLLLPLCPGPGLGPGSEAKVTRSCAETRQVLGARGYSLNLIPPALISGEHLQICPQ
EYTCCSSETEQKLIREAEATFRGLVEDSGSFLVHTLAARHRKFNEFFREMLSVSQQSLAQLFSH
SYGRLYSQHALVFNGLFSRLRDYYEKSGEGLDDTLSDFWAQLLERAFPLLHPQYSFPPDFLLCL
TRLTSTTEGSLQPFGDSPRRLRLQITRALVAAKAFVQGLETGRSVVSETLKVPVSEGCRQALMR
LTGCPLCRGVPSLMPCRGFCLNVAHGCLSSKGLEPDWGSYLDGLLLLAEKLQGPFSFELAAESI
GVKISEGLMYLQENSVKVSAKAFQECGTPHPVPARHRRAPAPREEAGRPWRAAAEEERPTTAAG
TNLHRLVWELRERLGRVRGFWAGLPLTVCGDSRMAADVSQEAAPCWTGVGRGRYLQPVVGASPT
EQLHNPELDVDVSGPDVLTRRRRLQLRAATARMRAAALGQDLDKRDADEDASGSGGGQQYADDW
KAGTAPVAPPARPPRPPRPPRREGPGGKGGGGSTRYNQGRSRSGVTSVALHTPPVFILFSSALA
LLGPR

hide sequence

RefSeq Acc Id:

ENSCLAP00000001660 ⟸ ENSCLAT00000001703

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000001241	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000001703	ENTREZGENE
	ENSCLAT00000001703.1	UniProtKB/TrEMBL
InterPro	Glypican	UniProtKB/TrEMBL
	Glypican_CS	UniProtKB/TrEMBL
NCBI Gene	Gpc2	ENTREZGENE
PANTHER	PTHR10822	UniProtKB/TrEMBL
	PTHR10822:SF24	UniProtKB/TrEMBL
Pfam	Glypican	UniProtKB/TrEMBL
PROSITE	GLYPICAN	UniProtKB/TrEMBL
UniProt	A0A8C2ULV6	ENTREZGENE, UniProtKB/TrEMBL

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
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

RGD Manual Annotations

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

RGD Manual Annotations

Imported Annotations - PID (archival)