Summary ?
GeneID4248
SymbolMGAT3
SynonymsGNT-III|GNT3
Descriptionmannosyl (beta-1,4-)-glycoprotein beta-1,4-N-acetylglucosaminyltransferase
ReferenceMIM:604621|HGNC:HGNC:7046|Ensembl:ENSG00000128268|HPRD:07058|Vega:OTTHUMG00000030185
Gene typeprotein-coding
Map location22q13.1
Pascal p-value5.144E-5
Fetal beta-0.179
DMG1 (# studies)
eGenePutamen basal ganglia

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg093123362239884755MGAT31.25E-90.0311.32E-6DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs60015662239774448MGAT3ENSG00000128268.113.19E-60-78901gtex_brain_putamen_basal
rs65191902239774525MGAT3ENSG00000128268.112.279E-60-78824gtex_brain_putamen_basal
rs57576472239775047MGAT3ENSG00000128268.115.101E-60-78302gtex_brain_putamen_basal
rs57576482239775156MGAT3ENSG00000128268.115.088E-60-78193gtex_brain_putamen_basal
rs96111652239775250MGAT3ENSG00000128268.115.069E-60-78099gtex_brain_putamen_basal
rs96111662239775268MGAT3ENSG00000128268.115.069E-60-78081gtex_brain_putamen_basal
rs60015672239775400MGAT3ENSG00000128268.115.069E-60-77949gtex_brain_putamen_basal
rs60015682239775786MGAT3ENSG00000128268.119.746E-70-77563gtex_brain_putamen_basal
rs1997393332239777821MGAT3ENSG00000128268.114.525E-60-75528gtex_brain_putamen_basal
rs10101692239778167MGAT3ENSG00000128268.111.888E-60-75182gtex_brain_putamen_basal
rs10101702239778327MGAT3ENSG00000128268.111.888E-60-75022gtex_brain_putamen_basal
rs96111692239783027MGAT3ENSG00000128268.113.538E-60-70322gtex_brain_putamen_basal
rs24135902239790191MGAT3ENSG00000128268.118.085E-70-63158gtex_brain_putamen_basal
rs57508082239790987MGAT3ENSG00000128268.118.109E-70-62362gtex_brain_putamen_basal
rs57508092239791491MGAT3ENSG00000128268.115.757E-70-61858gtex_brain_putamen_basal
rs57508102239792943MGAT3ENSG00000128268.118.159E-70-60406gtex_brain_putamen_basal
rs57508112239793066MGAT3ENSG00000128268.118.161E-70-60283gtex_brain_putamen_basal
rs43214602239793655MGAT3ENSG00000128268.114.92E-60-59694gtex_brain_putamen_basal
rs43864222239793734MGAT3ENSG00000128268.113.853E-60-59615gtex_brain_putamen_basal
rs57508132239795228MGAT3ENSG00000128268.112.021E-60-58121gtex_brain_putamen_basal
rs48218922239795683MGAT3ENSG00000128268.111.419E-60-57666gtex_brain_putamen_basal
rs48218932239797779MGAT3ENSG00000128268.111.438E-60-55570gtex_brain_putamen_basal
rs57508152239798449MGAT3ENSG00000128268.111.436E-60-54900gtex_brain_putamen_basal
rs60015822239806153MGAT3ENSG00000128268.112.434E-60-47196gtex_brain_putamen_basal
rs48218942239809820MGAT3ENSG00000128268.111.444E-60-43529gtex_brain_putamen_basal
rs57576592239812409MGAT3ENSG00000128268.111.444E-60-40940gtex_brain_putamen_basal
rs60015882239819049MGAT3ENSG00000128268.111.444E-60-34300gtex_brain_putamen_basal
rs57576632239821319MGAT3ENSG00000128268.111.726E-60-32030gtex_brain_putamen_basal
rs57576652239821641MGAT3ENSG00000128268.111.461E-60-31708gtex_brain_putamen_basal
rs7438382239824707MGAT3ENSG00000128268.111.444E-60-28642gtex_brain_putamen_basal
rs57508282239835083MGAT3ENSG00000128268.111.762E-60-18266gtex_brain_putamen_basal
rs60015942239837472MGAT3ENSG00000128268.117.107E-70-15877gtex_brain_putamen_basal
rs28993182239837625MGAT3ENSG00000128268.117.039E-70-15724gtex_brain_putamen_basal
rs96111762239838003MGAT3ENSG00000128268.111.317E-70-15346gtex_brain_putamen_basal
rs48218982239838352MGAT3ENSG00000128268.116.727E-70-14997gtex_brain_putamen_basal
rs57576752239838892MGAT3ENSG00000128268.111.773E-60-14457gtex_brain_putamen_basal
rs60015952239839293MGAT3ENSG00000128268.114.865E-70-14056gtex_brain_putamen_basal
rs81384622239839670MGAT3ENSG00000128268.111.735E-60-13679gtex_brain_putamen_basal
rs57508302239840828MGAT3ENSG00000128268.111.757E-60-12521gtex_brain_putamen_basal
rs73641482239842165MGAT3ENSG00000128268.111.436E-60-11184gtex_brain_putamen_basal
rs93063352239843537MGAT3ENSG00000128268.115.318E-60-9812gtex_brain_putamen_basal
rs81374262239844350MGAT3ENSG00000128268.111.471E-60-8999gtex_brain_putamen_basal
rs57576802239844793MGAT3ENSG00000128268.112.168E-60-8556gtex_brain_putamen_basal
rs57576812239845547MGAT3ENSG00000128268.111.095E-60-7802gtex_brain_putamen_basal
rs10055222239845898MGAT3ENSG00000128268.112.304E-70-7451gtex_brain_putamen_basal
rs57576822239848259MGAT3ENSG00000128268.111.471E-60-5090gtex_brain_putamen_basal
rs15575432239852648MGAT3ENSG00000128268.117.285E-70-701gtex_brain_putamen_basal
rs60015992239852720MGAT3ENSG00000128268.111.471E-60-629gtex_brain_putamen_basal
rs59957352239854421MGAT3ENSG00000128268.111.095E-601072gtex_brain_putamen_basal
rs57576852239855540MGAT3ENSG00000128268.117.285E-702191gtex_brain_putamen_basal
rs7382872239855728MGAT3ENSG00000128268.117.285E-702379gtex_brain_putamen_basal
rs7382892239855883MGAT3ENSG00000128268.117.285E-702534gtex_brain_putamen_basal
rs7382852239856356MGAT3ENSG00000128268.118.128E-703007gtex_brain_putamen_basal

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.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003830beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activityIEA-
GO:0016757transferase activity, transferring glycosyl groupsIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006487protein amino acid N-linked glycosylationIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0000139Golgi membraneIEA-
GO:0005794Golgi apparatusIEA-
GO:0016020membraneIEA-
GO:0016021integral to membraneTAS8370666 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG N GLYCAN BIOSYNTHESIS 4631All SZGR 2.0 genes in this pathway
PID ECADHERIN STABILIZATION PATHWAY 4234All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF PROTEINS 518242All SZGR 2.0 genes in this pathway
REACTOME POST TRANSLATIONAL PROTEIN MODIFICATION 188116All SZGR 2.0 genes in this pathway
REACTOME ASPARAGINE N LINKED GLYCOSYLATION 8154All SZGR 2.0 genes in this pathway
REACTOME TRANSPORT TO THE GOLGI AND SUBSEQUENT MODIFICATION 3324All SZGR 2.0 genes in this pathway
REACTOME N GLYCAN ANTENNAE ELONGATION IN THE MEDIAL TRANS GOLGI 1814All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN 663425All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE UP 530342All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN UP 479299All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS POORLY UP 236139All SZGR 2.0 genes in this pathway
SUNG METASTASIS STROMA UP 11070All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS DN 366238All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA CD1 VS CD2 DN 5235All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL AND PROGENITOR 681420All SZGR 2.0 genes in this pathway
BANDRES RESPONSE TO CARMUSTIN MGMT 48HR DN 161105All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 1 419273All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS DN 292189All SZGR 2.0 genes in this pathway
SMID BREAST CANCER NORMAL LIKE UP 476285All SZGR 2.0 genes in this pathway
AGUIRRE PANCREATIC CANCER COPY NUMBER DN 238145All SZGR 2.0 genes in this pathway
HOFFMAN CLOCK TARGETS DN 106All SZGR 2.0 genes in this pathway
KARLSSON TGFB1 TARGETS DN 207139All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway
DELACROIX RAR BOUND ES 462273All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM B 517302All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-5041611671Ahsa-miR-504AGACCCUGGUCUGCACUCUAU