Gene Report

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Basic Info

Approved Symbol	NCAN
Previous Symbol	CSPG3
Approved Name	neurocan
Previous Name	chondroitin sulfate proteoglycan 3
Name Alias	neurocan proteoglycan
Location	19p12
Position	chr19:19211973-19252233, 1
External Links	HGNC: 2465 Entrez Gene: 1463 Ensembl: ENSG00000130287 UCSC: uc002nlz.3
No. of Studies	1 (Positive: 1; Negative: 0; trend: 0)
Overlap with SZ?	NO
Overlap with MDD?	NO

Gene related studies (count: 1)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Cichon, S.,2011	SNP: rs1064395	In summary, the present study has identified a susceptibility factor , NCAN for BD.	Positive	Comment on Study

Gene functional annotation

Gene related GO terms (count: 22)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0030246	carbohydrate binding	molecular function	IEA	6
GO:0007155	cell adhesion	biological process	IBA	42
GO:0005509	calcium ion binding	molecular function	IEA	50
GO:0007411	axon guidance	biological process	TAS	60
GO:0007417	central nervous system development	biological process	IBA	21

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0005540	hyaluronic acid binding	molecular function	IBA	2
GO:0005576	extracellular region	cellular component	TAS	97
GO:0030198	extracellular matrix organization	biological process	TAS	26
GO:0030207	chondroitin sulfate catabolic process	biological process	TAS	1
GO:0005578	proteinaceous extracellular matrix	cellular component	IBA	19
GO:0005975	carbohydrate metabolic process	biological process	TAS	12
GO:0030204	chondroitin sulfate metabolic process	biological process	TAS	2
GO:0030206	chondroitin sulfate biosynthetic process	biological process	TAS	1
GO:0001501	skeletal system development	biological process	IBA	16
GO:0030208	dermatan sulfate biosynthetic process	biological process	TAS	1
GO:0044281	small molecule metabolic process	biological process	TAS	117
GO:0030203	glycosaminoglycan metabolic process	biological process	TAS	5
GO:0009405	pathogenesis	biological process	TAS	13
GO:0043202	lysosomal lumen	cellular component	TAS	4
GO:0005796	Golgi lumen	cellular component	TAS	9
GO:0051823	regulation of synapse structural plasticity	biological process	IEA	2
GO:0005201	extracellular matrix structural constituent	molecular function	IBA	6

Gene related KEGG pathways (count: 0)

Gene related BioCarta pathways (count: 0)

Gene related interactors from protein-protein interactions data in HPRD (count: 5)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
NCAN	TNC	NO	in vivo	9341124
NCAN	CNTN2	NO	in vitro	8663515
NCAN	PTN	NO	in vitro	9507007
NCAN	L1CAM	NO	in vivo	7513709 , 10934197
NCAN	HMGB1	NO	in vitro	9507007

Related other genetic factors

Gene related SNPs (count: 6)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs1064395	chr19:19250926 - 19250926(1)	3_prime_UTR_variant; downstream_gene_variant; upstream_gene_variant	1(0/0/1)

rs_ID	Location	Functional Annotation
rs10423874	chr19:19248691 - 19248691(1)	intron_variant; non_coding_transcript_variant
rs10401714	chr19:19252821 - 19252821(1)	downstream_gene_variant; upstream_gene_variant
rs10407933	chr19:19253510 - 19253510(1)	downstream_gene_variant; upstream_gene_variant
rs4808933	chr19:19253003 - 19253003(1)	downstream_gene_variant; upstream_gene_variant
rs17216041	chr19:19255834 - 19255834(1)	3_prime_UTR_variant; downstream_gene_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant

Gene related CNVs (count: 0)

Gene related other variants (count: 0)

Gene related regions (count: 3)

Region Name	Position	No. of Studies (Positive/Negative/Trend)
19p13-q13	chr19:0-58617616	1 (0/1/0)
Chr 19	chr19:0-58617616	2 (0/2/0)
19p13	chr19:0-19900000	2 (0/1/1)

Overlap with schizophrenia (SZ) and major depressive disorder (MDD)

Gene relationship with SZ

Gene relationship with MDD

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Region: chr19:19211973..19252233 View in gBrowse