Summary ?
GeneID3675
SymbolITGA3
SynonymsCD49C|FRP-2|GAP-B3|GAPB3|ILNEB|MSK18|VCA-2|VL3A|VLA3a
Descriptionintegrin subunit alpha 3
ReferenceMIM:605025|HGNC:HGNC:6139|Ensembl:ENSG00000005884|HPRD:05431|Vega:OTTHUMG00000161890
Gene typeprotein-coding
Map location17q21.33
Pascal p-value0.581
Sherlock p-value0.127
Fetal beta-0.374
eGeneCerebellar Hemisphere
Cerebellum
Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DNM:Gulsuner_2013Whole Exome Sequencing analysis155 DNMs identified by exome sequencing of quads or trios of schizophrenia individuals and their parents.
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,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 2 

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
ITGA3chr1748154453CGNM_002204
NM_005501
p.680P>A
p.680P>A
missense
missense
SchizophreniaDNM:Gulsuner_2013

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs1570589chr9116874354ITGA336750.15trans

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
ATHL10.720.78
ADAM330.720.77
ACADVL0.720.73
MYO15B0.690.81
CATSPER20.690.70
DNAH10.690.77
AL117190.30.680.81
DCDC2B0.670.69
CES80.670.64
MALAT10.650.69
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MOBKL3-0.47-0.56
HSPA13-0.45-0.49
DNAJA1-0.44-0.51
METTL9-0.44-0.50
ARF4-0.44-0.48
SERP1-0.44-0.50
UBE2N-0.44-0.56
RBMXL1-0.44-0.45
MARCKS-0.44-0.43
IPMK-0.44-0.47

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004872receptor activityIEA-
GO:0005509calcium ion bindingIEA-
GO:0005515protein bindingIEA-
GO:0005515protein bindingIPI14676841 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0001764neuron migrationIEAneuron (GO term level: 8)-
GO:0007160cell-matrix adhesionTAS1655803 
GO:0007155cell adhesionIEA-
GO:0007229integrin-mediated signaling pathwayIEA-
GO:0007613memoryIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0019717synaptosomeIEASynap, Brain (GO term level: 7)-
GO:0016020membraneIEA-
GO:0016021integral to membraneIEA-
GO:0005886plasma membraneIEA-
GO:0008305integrin complexIEA-
GO:0008305integrin complexTAS1655803 
GO:0016323basolateral plasma membraneIEA-

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
BIN1AMPH2 | AMPHL | DKFZp547F068 | MGC10367 | SH3P9bridging integrator 1-HPRD,BioGRID10094488 
CALRCRT | FLJ26680 | RO | SSA | cC1qRcalreticulin-HPRD8006073|11327697 
CALRCRT | FLJ26680 | RO | SSA | cC1qRcalreticulin-HPRD11327697 
CD151GP27 | MER2 | PETA-3 | RAPH | SFA1 | TSPAN24CD151 molecule (Raph blood group)Reconstituted ComplexBioGRID10734060 
CD824F9 | C33 | GR15 | IA4 | KAI1 | R2 | SAR2 | ST6 | TSPAN27CD82 molecule-HPRD8757325 
CD95H9 | BA2 | BTCC-1 | DRAP-27 | GIG2 | MIC3 | MRP-1 | P24 | TSPAN29CD9 molecule-HPRD,BioGRID10065872 |10694273 
FHL2AAG11 | DRAL | SLIM3four and a half LIM domains 2-HPRD,BioGRID10906324 
FN1CIG | DKFZp686F10164 | DKFZp686H0342 | DKFZp686I1370 | DKFZp686O13149 | ED-B | FINC | FN | FNZ | GFND | GFND2 | LETS | MSFfibronectin 1-HPRD9733622 
ITGB1CD29 | FNRB | GPIIA | MDF2 | MSK12 | VLA-BETA | VLABintegrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)VLA3-alpha3 interacts with VLA3-beta.BIND1690718 |1693624 
|3546305 
ITGB1CD29 | FNRB | GPIIA | MDF2 | MSK12 | VLA-BETA | VLABintegrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)VLA3-alpha3 interacts with VLA3-betaBIND3546305 
ITGB1CD29 | FNRB | GPIIA | MDF2 | MSK12 | VLA-BETA | VLABintegrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)-HPRD,BioGRID15254262 
LAMA3BM600 | E170 | LAMNA | LOCS | lama3alaminin, alpha 3-HPRD9950675 |11278628 
LGALS8Gal-8 | PCTA-1 | PCTA1 | Po66-CBPlectin, galactoside-binding, soluble, 8-HPRD,BioGRID10852818 
RABIFMSS4 | RASGFR3 | RASGRF3RAB interacting factor-HPRD,BioGRID10094488 
TIMP2CSC-21KTIMP metallopeptidase inhibitor 2TIMP2 interacts with ITGA3 (alpha3).BIND12887919 
TSPAN4NAG-2 | NAG2 | TETRASPAN | TM4SF7 | TSPAN-4tetraspanin 4-HPRD,BioGRID9360996 |10734060 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG FOCAL ADHESION 201138All SZGR 2.0 genes in this pathway
KEGG ECM RECEPTOR INTERACTION 8453All SZGR 2.0 genes in this pathway
KEGG HEMATOPOIETIC CELL LINEAGE 8860All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON 216144All SZGR 2.0 genes in this pathway
KEGG PATHWAYS IN CANCER 328259All SZGR 2.0 genes in this pathway
KEGG SMALL CELL LUNG CANCER 8467All SZGR 2.0 genes in this pathway
KEGG HYPERTROPHIC CARDIOMYOPATHY HCM 8565All SZGR 2.0 genes in this pathway
KEGG ARRHYTHMOGENIC RIGHT VENTRICULAR CARDIOMYOPATHY ARVC 7659All SZGR 2.0 genes in this pathway
KEGG DILATED CARDIOMYOPATHY 9268All SZGR 2.0 genes in this pathway
ST INTEGRIN SIGNALING PATHWAY 8262All SZGR 2.0 genes in this pathway
PID INTEGRIN1 PATHWAY 6644All SZGR 2.0 genes in this pathway
PID INTEGRIN CS PATHWAY 2616All SZGR 2.0 genes in this pathway
PID ARF6 TRAFFICKING PATHWAY 4934All SZGR 2.0 genes in this pathway
PID REELIN PATHWAY 2929All SZGR 2.0 genes in this pathway
PID CXCR4 PATHWAY 10278All SZGR 2.0 genes in this pathway
PID UPA UPAR PATHWAY 4230All SZGR 2.0 genes in this pathway
PID IL23 PATHWAY 3730All SZGR 2.0 genes in this pathway
PID DELTA NP63 PATHWAY 4734All SZGR 2.0 genes in this pathway
PID TAP63 PATHWAY 5440All SZGR 2.0 genes in this pathway
REACTOME CELL SURFACE INTERACTIONS AT THE VASCULAR WALL 9165All SZGR 2.0 genes in this pathway
REACTOME BASIGIN INTERACTIONS 3023All SZGR 2.0 genes in this pathway
REACTOME INTEGRIN CELL SURFACE INTERACTIONS 7948All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS 466331All SZGR 2.0 genes in this pathway
CORRE MULTIPLE MYELOMA UP 7445All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL DN 455304All SZGR 2.0 genes in this pathway
RODRIGUES NTN1 TARGETS DN 158102All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS UP 293179All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP 443294All SZGR 2.0 genes in this pathway
WANG BARRETTS ESOPHAGUS UP 5127All SZGR 2.0 genes in this pathway
BEGUM TARGETS OF PAX3 FOXO1 FUSION DN 4534All SZGR 2.0 genes in this pathway
MAHADEVAN GIST MORPHOLOGICAL SWITCH 1511All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER UP 358245All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS DN 848527All SZGR 2.0 genes in this pathway
COLIN PILOCYTIC ASTROCYTOMA VS GLIOBLASTOMA UP 3532All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 17Q21 Q25 AMPLICON 335181All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST UP 398262All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS DN 366238All SZGR 2.0 genes in this pathway
KANG IMMORTALIZED BY TERT UP 8961All SZGR 2.0 genes in this pathway
CROMER METASTASIS DN 8158All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C8 7256All SZGR 2.0 genes in this pathway
HENDRICKS SMARCA4 TARGETS UP 5635All SZGR 2.0 genes in this pathway
CHIBA RESPONSE TO TSA UP 5233All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298200All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 20HR DN 10170All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL 254164All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 48HR DN 504323All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 8HR DN 4731All SZGR 2.0 genes in this pathway
VERRECCHIA RESPONSE TO TGFB1 C1 1915All SZGR 2.0 genes in this pathway
VERRECCHIA EARLY RESPONSE TO TGFB1 5843All SZGR 2.0 genes in this pathway
BANDRES RESPONSE TO CARMUSTIN WITHOUT MGMT 48HR DN 3225All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN 434302All SZGR 2.0 genes in this pathway
BANDRES RESPONSE TO CARMUSTIN MGMT 48HR DN 161105All SZGR 2.0 genes in this pathway
HELLEBREKERS SILENCED DURING TUMOR ANGIOGENESIS 8056All SZGR 2.0 genes in this pathway
GU PDEF TARGETS UP 7149All SZGR 2.0 genes in this pathway
AGUIRRE PANCREATIC CANCER COPY NUMBER UP 298174All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP 395249All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457302All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668419All SZGR 2.0 genes in this pathway
POOLA INVASIVE BREAST CANCER DN 13483All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2 AND H3K27ME3 349234All SZGR 2.0 genes in this pathway
FOURNIER ACINAR DEVELOPMENT LATE 2 277172All SZGR 2.0 genes in this pathway
MIKKELSEN NPC HCP WITH H3K4ME3 AND H3K27ME3 210148All SZGR 2.0 genes in this pathway
NAKAMURA ADIPOGENESIS EARLY DN 3827All SZGR 2.0 genes in this pathway
NAKAMURA ADIPOGENESIS LATE DN 3825All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO GONADOTROPHINS DN 8766All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO FORSKOLIN DN 8868All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 2HR DN 4933All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 UP 430288All SZGR 2.0 genes in this pathway
PASINI SUZ12 TARGETS DN 315215All SZGR 2.0 genes in this pathway
VANDESLUIS COMMD1 TARGETS GROUP 3 UP 8950All SZGR 2.0 genes in this pathway
WIEDERSCHAIN TARGETS OF BMI1 AND PCGF2 5739All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP 682433All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3 824528All SZGR 2.0 genes in this pathway
KATSANOU ELAVL1 TARGETS UP 169105All SZGR 2.0 genes in this pathway
PEDERSEN METASTASIS BY ERBB2 ISOFORM 7 403240All SZGR 2.0 genes in this pathway
KRIEG HYPOXIA NOT VIA KDM3A 770480All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS DN 784464All SZGR 2.0 genes in this pathway
FOSTER KDM1A TARGETS DN 211119All 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-124/50611601166m8hsa-miR-506UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brainUAAGGCACGCGGUGAAUGCC
miR-1818838901A,m8hsa-miR-181abrainAACAUUCAACGCUGUCGGUGAGU
hsa-miR-181bSZAACAUUCAUUGCUGUCGGUGGG
hsa-miR-181cbrainAACAUUCAACCUGUCGGUGAGU
hsa-miR-181dbrainAACAUUCAUUGUUGUCGGUGGGUU
miR-244104161Ahsa-miR-24SZUGGCUCAGUUCAGCAGGAACAG
miR-381116911751Ahsa-miR-381UAUACAAGGGCAAGCUCUCUGU