Summary ?
GeneID6857
SymbolSYT1
SynonymsP65|SVP65|SYT
Descriptionsynaptotagmin 1
ReferenceMIM:185605|HGNC:HGNC:11509|Ensembl:ENSG00000067715|HPRD:01710|Vega:OTTHUMG00000134326
Gene typeprotein-coding
Map location12cen-q21
Pascal p-value0.003
Sherlock p-value0.923
Fetal beta-0.706
eGeneMyers' cis & trans
SupportCANABINOID
DOPAMINE
EXOCYTOSIS
METABOTROPIC GLUTAMATE RECEPTOR
SEROTONIN
G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS
G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL
G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS
G2Cdb.human_clathrin
G2Cdb.human_Synaptosome
G2Cdb.human_TAP-PSD-95-CORE
G2Cdb.humanNRC
CompositeSet
Darnell FMRP targets
Potential synaptic genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 5 
NetworkShortest path distance of core genes in the Human protein-protein interaction networkContribution to shortest path in PPI network: 0.0024 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs7132043chr1280968399SYT168570.17trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
GenePearson's Correlation Spearman's Correlation
ACTR30.930.94
GSPT20.920.93
CCT6A0.920.94
SKIV2L20.920.93
ARMCX10.920.92
SNX40.920.92
COPB10.920.91
PLAA0.920.93
RAB100.920.93
MATR30.910.93
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
FXYD1-0.73-0.85
MT-CO2-0.73-0.85
AF347015.33-0.72-0.84
AF347015.31-0.71-0.83
HLA-F-0.71-0.79
IFI27-0.70-0.83
AF347015.27-0.69-0.81
AF347015.8-0.69-0.83
MT-CYB-0.68-0.81
AF347015.2-0.68-0.85

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0005543phospholipid bindingTAS1840599 
GO:0005545phosphatidylinositol bindingTAS11438518 
GO:0005509calcium ion bindingIEA-
GO:0005215transporter activityIEA-
GO:0048306calcium-dependent protein bindingIEA-
GO:0017075syntaxin-1 bindingTAS11438518 
GO:0050750low-density lipoprotein receptor bindingIDA15082773 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007269neurotransmitter secretionTASneuron, axon, Synap, serotonin, Neurotransmitter, dopamine (GO term level: 8)11438518 
GO:0007268synaptic transmissionTASneuron, Synap, Neurotransmitter (GO term level: 6)1840599 
GO:0005513detection of calcium ionTAS11438518 
GO:0006810transportIEA-
GO:0051260protein homooligomerizationTAS11438518 
GO:0017157regulation of exocytosisTAS11438518 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0042734presynaptic membraneIEAneuron, axon, Synap (GO term level: 5)-
GO:0043005neuron projectionIEAneuron, axon, neurite, dendrite (GO term level: 5)-
GO:0030672synaptic vesicle membraneIEASynap (GO term level: 13)-
GO:0045202synapseIEAneuron, Synap, Neurotransmitter, Glial (GO term level: 2)-
GO:0005737cytoplasmIEA-
GO:0016021integral to membraneIEA-
GO:0030054cell junctionIEA-
GO:0031410cytoplasmic vesicleIEA-
GO:0030141secretory granuleIEA-
GO:0030666endocytic vesicle membraneEXP2446925 

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
C6orf15STGchromosome 6 open reading frame 15Affinity Capture-WesternBioGRID15466855 
CACNA1AAPCA | CACNL1A4 | CAV2.1 | EA2 | FHM | HPCA | MHP | MHP1 | SCA6calcium channel, voltage-dependent, P/Q type, alpha 1A subunit-HPRD,BioGRID9303303 
CALM1CALML2 | CAMI | DD132 | PHKDcalmodulin 1 (phosphorylase kinase, delta)Reconstituted ComplexBioGRID8901523 
CPLX1CPX-I | CPX1complexin 1-HPRD7553862 
FGF1AFGF | ECGF | ECGF-beta | ECGFA | ECGFB | FGF-alpha | FGFA | GLIO703 | HBGF1fibroblast growth factor 1 (acidic)-HPRD,BioGRID11432880 
GOLM1C9orf155 | FLJ22634 | FLJ23608 | GOLPH2 | GP73 | PSEC0257 | bA379P1.3golgi membrane protein 1Two-hybridBioGRID16169070 
NRXN1DKFZp313P2036 | FLJ35941 | Hs.22998 | KIAA0578neurexin 1-HPRD8901523 |11243866 
S100A13-S100 calcium binding protein A13-HPRD,BioGRID9712836 |11432880 
|12135982 
SNAP25FLJ23079 | RIC-4 | RIC4 | SEC9 | SNAP | SNAP-25 | bA416N4.2 | dJ1068F16.2synaptosomal-associated protein, 25kDa-HPRD,BioGRID10692432 
STON2STN2 | STNB | STNB2stonin 2-HPRD,BioGRID11381094 |11454741 
STX1AHPC-1 | STX1 | p35-1syntaxin 1A (brain)-HPRD,BioGRID9010211 
STX2EPIM | EPM | MGC51014 | STX2A | STX2B | STX2Csyntaxin 2Reconstituted ComplexBioGRID10397765 
STX3STX3Asyntaxin 3Reconstituted ComplexBioGRID10397765 
STX4STX4A | p35-2syntaxin 4Reconstituted ComplexBioGRID10397765 
SV2BHsT19680 | KIAA0735synaptic vesicle glycoprotein 2B-HPRD,BioGRID15466855 
SV2CMGC118874 | MGC118875 | MGC118876 | MGC118877synaptic vesicle glycoprotein 2CAffinity Capture-WesternBioGRID15466855 
SYNCRIPGRY-RBP | HNRPQ1 | NSAP1 | RP1-3J17.2 | dJ3J17.2 | hnRNP-Q | pp68synaptotagmin binding, cytoplasmic RNA interacting protein-HPRD,BioGRID10734137 
SYT4HsT1192 | KIAA1342synaptotagmin IV-HPRD10397765 
ZDHHC17HIP14 | HIP3 | HSPC294 | HYPH | KIAA0946zinc finger, DHHC-type containing 17HIP14 catalyzes palmitoylation of Synaptotagmin I. This interaction was modeled on a demonstrated interaction between human HIP14 and Synaptotagmin I from an unspecified species.BIND15603740 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
SIG CD40PATHWAYMAP 3428All SZGR 2.0 genes in this pathway
REACTOME BOTULINUM NEUROTOXICITY 1914All SZGR 2.0 genes in this pathway
REACTOME GLUTAMATE NEUROTRANSMITTER RELEASE CYCLE 1513All SZGR 2.0 genes in this pathway
REACTOME TRANSMISSION ACROSS CHEMICAL SYNAPSES 186155All SZGR 2.0 genes in this pathway
REACTOME NEURONAL SYSTEM 279221All SZGR 2.0 genes in this pathway
REACTOME NEUROTRANSMITTER RELEASE CYCLE 3430All SZGR 2.0 genes in this pathway
REACTOME DOPAMINE NEUROTRANSMITTER RELEASE CYCLE 1111All SZGR 2.0 genes in this pathway
REACTOME ACETYLCHOLINE NEUROTRANSMITTER RELEASE CYCLE 109All SZGR 2.0 genes in this pathway
REACTOME NOREPINEPHRINE NEUROTRANSMITTER RELEASE CYCLE 1010All SZGR 2.0 genes in this pathway
REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION 1716All SZGR 2.0 genes in this pathway
PARENT MTOR SIGNALING UP 567375All SZGR 2.0 genes in this pathway
HOOI ST7 TARGETS UP 9457All SZGR 2.0 genes in this pathway
DOANE BREAST CANCER ESR1 UP 11272All SZGR 2.0 genes in this pathway
HORIUCHI WTAP TARGETS DN 310188All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781465All SZGR 2.0 genes in this pathway
PROVENZANI METASTASIS UP 194112All SZGR 2.0 genes in this pathway
WEI MIR34A TARGETS 14897All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS UP 292168All SZGR 2.0 genes in this pathway
RICKMAN HEAD AND NECK CANCER B 4822All SZGR 2.0 genes in this pathway
LEE TARGETS OF PTCH1 AND SUFU DN 8369All SZGR 2.0 genes in this pathway
CHESLER BRAIN HIGHEST EXPRESSION 4029All SZGR 2.0 genes in this pathway
ZHANG TARGETS OF EWSR1 FLI1 FUSION 8868All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS POSTNATAL 6350All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237837All SZGR 2.0 genes in this pathway
JIANG AGING HYPOTHALAMUS DN 4031All SZGR 2.0 genes in this pathway
JIANG AGING CEREBRAL CORTEX DN 5443All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1 528324All SZGR 2.0 genes in this pathway
LEIN NEURON MARKERS 6945All SZGR 2.0 genes in this pathway
RIGGINS TAMOXIFEN RESISTANCE DN 220147All SZGR 2.0 genes in this pathway
WANG LSD1 TARGETS DN 3930All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP 461298All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE DN 258160All SZGR 2.0 genes in this pathway
SMID BREAST CANCER RELAPSE IN BONE UP 9761All SZGR 2.0 genes in this pathway
SMID BREAST CANCER LUMINAL B UP 172109All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701446All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL OPTIMAL DEBULKING 246152All SZGR 2.0 genes in this pathway
BASSO HAIRY CELL LEUKEMIA DN 8066All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP 395249All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 ICP WITH H3K4ME3 AND H3K27ME3 3421All SZGR 2.0 genes in this pathway
MIKKELSEN MEF ICP WITH H3K4ME3 AND H3K27ME3 3834All SZGR 2.0 genes in this pathway
MIKKELSEN ES ICP WITH H3K4ME3 718401All SZGR 2.0 genes in this pathway
MIKKELSEN NPC ICP WITH H3K4ME3 445257All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS CALB1 CORR UP 548370All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS LOW SERUM 10051All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT 567365All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway
SERVITJA LIVER HNF1A TARGETS DN 157105All SZGR 2.0 genes in this pathway
GUO TARGETS OF IRS1 AND IRS2 9867All SZGR 2.0 genes in this pathway
KUMAR PATHOGEN LOAD BY MACROPHAGES 275155All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
let-7/9861671Ahsa-let-7abrainUGAGGUAGUAGGUUGUAUAGUU
hsa-let-7bbrainUGAGGUAGUAGGUUGUGUGGUU
hsa-let-7cbrainUGAGGUAGUAGGUUGUAUGGUU
hsa-let-7dbrainAGAGGUAGUAGGUUGCAUAGU
hsa-let-7ebrainUGAGGUAGGAGGUUGUAUAGU
hsa-let-7fbrainUGAGGUAGUAGAUUGUAUAGUU
hsa-miR-98brainUGAGGUAGUAAGUUGUAUUGUU
hsa-let-7gSZUGAGGUAGUAGUUUGUACAGU
hsa-let-7ibrainUGAGGUAGUAGUUUGUGCUGU
miR-1/2064494551Ahsa-miR-1UGGAAUGUAAAGAAGUAUGUA
hsa-miR-206SZUGGAAUGUAAGGAAGUGUGUGG
hsa-miR-613AGGAAUGUUCCUUCUUUGCC
hsa-miR-1UGGAAUGUAAAGAAGUAUGUA
hsa-miR-206SZUGGAAUGUAAGGAAGUGUGUGG
hsa-miR-613AGGAAUGUUCCUUCUUUGCC
miR-12816811687m8hsa-miR-128aUCACAGUGAACCGGUCUCUUUU
hsa-miR-128bUCACAGUGAACCGGUCUCUUUC
hsa-miR-128aUCACAGUGAACCGGUCUCUUUU
hsa-miR-128bUCACAGUGAACCGGUCUCUUUC
miR-129-5p456462m8hsa-miR-129brainCUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5pCUUUUUGCGGUCUGGGCUUGCU
miR-133160216081Ahsa-miR-133aUUGGUCCCCUUCAACCAGCUGU
hsa-miR-133bUUGGUCCCCUUCAACCAGCUA
miR-135118511911Ahsa-miR-135aUAUGGCUUUUUAUUCCUAUGUGA
hsa-miR-135bUAUGGCUUUUCAUUCCUAUGUG
miR-1372162231A,m8hsa-miR-137UAUUGCUUAAGAAUACGCGUAG
miR-146158715941A,m8hsa-miR-146aUGAGAACUGAAUUCCAUGGGUU
hsa-miR-146bbrainUGAGAACUGAAUUCCAUAGGCU
miR-148/15215571563m8hsa-miR-148aUCAGUGCACUACAGAACUUUGU
hsa-miR-152brainUCAGUGCAUGACAGAACUUGGG
hsa-miR-148bUCAGUGCAUCACAGAACUUUGU
miR-15316241630m8hsa-miR-153UUGCAUAGUCACAAAAGUGA
miR-191421491A,m8hsa-miR-19aUGUGCAAAUCUAUGCAAAACUGA
hsa-miR-19bUGUGCAAAUCCAUGCAAAACUGA
miR-19346521Ahsa-miR-193aAACUGGCCUACAAAGUCCCAG
hsa-miR-193bAACUGGCCCUCAAAGUCCCGCUUU
miR-200bc/42911261132m8hsa-miR-200bUAAUACUGCCUGGUAAUGAUGAC
hsa-miR-200cUAAUACUGCCGGGUAAUGAUGG
hsa-miR-429UAAUACUGUCUGGUAAAACCGU
miR-218157815841Ahsa-miR-218brainUUGUGCUUGAUCUAACCAUGU
miR-221/222157515811Ahsa-miR-221brainAGCUACAUUGUCUGCUGGGUUUC
hsa-miR-222brainAGCUACAUCUGGCUACUGGGUCUC
miR-2714571463m8hsa-miR-27abrainUUCACAGUGGCUAAGUUCCGC
hsa-miR-27bbrainUUCACAGUGGCUAAGUUCUGC
miR-329157215781Ahsa-miR-329brainAACACACCUGGUUAACCUCUUU
miR-34/449153915451Ahsa-miR-34abrainUGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34cAGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449bAGGCAGUGUAUUGUUAGCUGGC
hsa-miR-34abrainUGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34cAGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449bAGGCAGUGUAUUGUUAGCUGGC
hsa-miR-34abrainUGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34cAGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449bAGGCAGUGUAUUGUUAGCUGGC
miR-369-3p4214271Ahsa-miR-369-3pAAUAAUACAUGGUUGAUCUUU
miR-374421427m8hsa-miR-374UUAUAAUACAACCUGAUAAGUG
miR-3812712771Ahsa-miR-381UAUACAAGGGCAAGCUCUCUGU
miR-3825095161A,m8hsa-miR-382brainGAAGUUGUUCGUGGUGGAUUCG
miR-4504564621Ahsa-miR-450UUUUUGCGAUGUGUUCCUAAUA
miR-4963853911Ahsa-miR-496AUUACAUGGCCAAUCUC