Gene Report

Basic information

Related studies

Functional annotation

Related other genetic factors

Overlap with SZ and MDD

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Basic Info

Approved Symbol	SYN2
Symbol Alias	SYNII, SYNIIa, SYNIIb
Approved Name	synapsin II
Location	3p25.2
Position	chr3:12004402-12191400, 1
External Links	HGNC: 11495 Entrez Gene: 6854 Ensembl: ENSG00000157152 UCSC: uc032rek.1
No. of Studies	1 (Positive: 0; Negative: 1; trend: 0)
Overlap with SZ?	YES
Overlap with MDD?	YES

Gene related studies (count: 1)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Wang, Y.,2009	SNP: rs308963, rs795009	The frequencies of the alleles or genotypes did not differ significantly between the case group and the control group.No association was found in this study.	Negative	Comment on Study

Gene functional annotation

Gene related GO terms (count: 8)

GO terms by PBA (count: 2)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0007268	synaptic transmission	biological process	TAS[8964517]	116
GO:0045202	synapse	cellular component	ISS	29

GO terms by database search (count: 6)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0005524	ATP binding	molecular function	TAS[15217342]	118
GO:0003824	catalytic activity	molecular function	IEA	5
GO:0030054	cell junction	cellular component	IEA	88
GO:0007269	neurotransmitter secretion	biological process	ISS	15
GO:0030672	synaptic vesicle membrane	cellular component	ISS	7
GO:0008152	metabolic process	biological process	IEA	50

Gene related KEGG pathways (count: 0)

Gene related BioCarta pathways (count: 0)

Gene related interactors from protein-protein interactions data in HPRD (count: 4)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
SYN2	SYN3	NO	in vitro;in vivo;yeast 2-hybrid	10358015
SYN2	NOS1AP	NO	in vivo	11867766
SYN2	PRKACA	NO	in vitro	10571231
SYN2	SYN1	NO	in vitro;in vivo;yeast 2-hybrid	10358015

Related other genetic factors

Gene related SNPs (count: 33)

Literature-origin SNPs (count: 2)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs795009	chr3:12167171 - 12167171(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	1(0/1/0)
rs308963	chr3:12140251 - 12140251(1)	intron_variant; non_coding_transcript_variant	1(0/1/0)

LD-proxies (count: 31)

rs_ID	Location	Functional Annotation
rs310766	chr3:12191982 - 12191982(1)	downstream_gene_variant
rs310759	chr3:12177777 - 12177777(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs749104	chr3:12181222 - 12181222(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs795010	chr3:12167495 - 12167495(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant
rs310758	chr3:12177023 - 12177023(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs795093	chr3:12139320 - 12139320(1)	intron_variant; non_coding_transcript_variant
rs308956	chr3:12147158 - 12147158(1)	intron_variant; non_coding_transcript_variant; upstream_gene_variant
rs308966	chr3:12129939 - 12129939(1)	intron_variant; non_coding_transcript_variant
rs92090	chr3:12136141 - 12136141(1)	intron_variant; non_coding_transcript_variant
rs60834	chr3:12112265 - 12112265(1)	intron_variant; non_coding_transcript_variant
rs307588	chr3:12068387 - 12068387(1)	intron_variant; upstream_gene_variant
rs307589	chr3:12067576 - 12067576(1)	intron_variant; upstream_gene_variant
rs521223	chr3:12070461 - 12070461(1)	intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant
rs307587	chr3:12068621 - 12068621(1)	intron_variant; upstream_gene_variant
rs423745	chr3:12072762 - 12072762(1)	downstream_gene_variant; intron_variant; non_coding_transcript_variant
rs598704	chr3:12070553 - 12070553(1)	intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant
rs794999	chr3:12187515 - 12187515(1)	downstream_gene_variant; missense_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant
rs307554	chr3:12105287 - 12105287(1)	intron_variant; non_coding_transcript_variant
rs1661583	chr3:12188938 - 12188938(1)	downstream_gene_variant; intron_variant; non_coding_transcript_variant
rs11718932	chr3:12000893 - 12000893(1)	upstream_gene_variant
rs422584	chr3:12014747 - 12014747(1)	intron_variant
rs307607	chr3:12024663 - 12024663(1)	intron_variant
rs385521	chr3:12034708 - 12034708(1)	intron_variant
rs307576	chr3:12038111 - 12038111(1)	intron_variant
rs307579	chr3:12042858 - 12042858(1)	intron_variant
rs307583	chr3:12045962 - 12045962(1)	intron_variant
rs307561	chr3:12051487 - 12051487(1)	intron_variant
rs307602	chr3:12058224 - 12058224(1)	intron_variant
rs307601	chr3:12058244 - 12058244(1)	intron_variant
rs307600	chr3:12058276 - 12058276(1)	intron_variant
rs307593	chr3:12066066 - 12066066(1)	intron_variant; upstream_gene_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)
3p25	chr3:8100000-16300000	1 (0/1/0)
Chr 3	chr3:0-198295559	2 (0/2/0)
3p24-p26	chr3:0-30800000	1 (0/1/0)

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

Gene relationship with SZ

Overlap with SZ from cross-disorder studies (count: 0)

Overlap with SZ from candidate gene intersection analysis (count: 5)

Reference	ID in SZGene	Result Category
17766091	230	Positive
16131404	230	Positive
19158809	230	Negative
15449241	230	Positive
15271586	230	Positive

Gene relationship with MDD

Overlap with MDD from cross-disorder studies (count: 0)

Overlap with MDD from candidate gene intersection analysis (count: 3)

Reference	Description	Category in MDD	Link in MK4MDD
23273899	No association with mood disorders and clinical outcomes was observed	Neg	SYN2
17938633	Selected differentially expressed genes in BA44 to BA47 (ANOVA and t-test P < 0.01, fold change 1.3t)	Pos	SYN2
22571925		Pos	SYN2

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Region: chr3:12004402..12191400 View in gBrowse