Summary ?
GeneID55558
SymbolPLXNA3
Synonyms6.3|HSSEXGENE|PLXN3|PLXN4|XAP-6
Descriptionplexin A3
ReferenceMIM:300022|HGNC:HGNC:9101|HPRD:02062|
Gene typeprotein-coding
Map locationXq28
Fetal beta1.417
SupportG2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL
Potential synaptic genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DNM:Ambalavanan_2016Whole Exome SequencingThis dataset includes 20 de novo mutations detected in 17 COS probands.
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 3 

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
PLXNA3chrX153692763GANM_017514p.(Arg616Gln)nonsynonymous SNV0.001Childhood-onset schizophreniaDNM:Ambalavanan_2016


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
GLB1L20.590.38
TMPRSS130.570.38
KIAA15300.560.45
PAPPA20.560.32
WNT7B0.550.32
CLCF10.550.49
CECR20.530.41
RP11-274B21.10.520.46
AC010522.10.520.45
DUOX10.520.42
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
DHRS7-0.43-0.47
C5orf35-0.37-0.48
PHYH-0.36-0.37
TMEM22-0.36-0.45
ACOT13-0.36-0.40
ITM2B-0.36-0.40
MGST2-0.35-0.40
PXMP3-0.35-0.46
ACYP2-0.35-0.37
HDDC2-0.35-0.38

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004888transmembrane receptor activityNAS8570614 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007411axon guidanceIEAaxon (GO term level: 13)-
GO:0021860pyramidal neuron developmentIEAneuron, Brain (GO term level: 12)-
GO:0048843negative regulation of axon extension involved in axon guidanceIEAaxon (GO term level: 16)-
GO:0007165signal transductionIEA-
GO:0007275multicellular organismal developmentTAS8570614 
GO:0050919negative chemotaxisIEA-
GO:0021766hippocampus developmentIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005622intracellularIEA-
GO:0016020membraneTAS8570614 
GO:0016021integral to membraneIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG AXON GUIDANCE 129103All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY 396292All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE 251188All SZGR 2.0 genes in this pathway
REACTOME CRMPS IN SEMA3A SIGNALING 1414All SZGR 2.0 genes in this pathway
REACTOME SEMA3A PAK DEPENDENT AXON REPULSION 1514All SZGR 2.0 genes in this pathway
REACTOME SEMAPHORIN INTERACTIONS 6853All SZGR 2.0 genes in this pathway
REACTOME SEMA3A PLEXIN REPULSION SIGNALING BY INHIBITING INTEGRIN ADHESION 139All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL UP 380215All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL UP 450256All SZGR 2.0 genes in this pathway
LOPEZ MESOTELIOMA SURVIVAL TIME UP 148All SZGR 2.0 genes in this pathway
LOPEZ MESOTHELIOMA SURVIVAL WORST VS BEST UP 1410All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781465All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 TTD UP 6439All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 UP 309199All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP 811508All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK UP 244151All SZGR 2.0 genes in this pathway
DAZARD UV RESPONSE CLUSTER G1 6741All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP 566371All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS UP 317208All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457302All SZGR 2.0 genes in this pathway
SYED ESTRADIOL RESPONSE 1915All SZGR 2.0 genes in this pathway
LOPEZ MESOTHELIOMA SURVIVAL OVERALL DN 168All SZGR 2.0 genes in this pathway
LOPEZ MESOTHELIOMA SURVIVAL DN 126All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS UP 217131All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS GROUP1 13676All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway
NABA ECM AFFILIATED 17189All SZGR 2.0 genes in this pathway
NABA MATRISOME ASSOCIATED 753411All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028559All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-124.1811817m8hsa-miR-124aUUAAGGCACGCGGUGAAUGCCA
miR-124/5068108171A,m8hsa-miR-506UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brainUAAGGCACGCGGUGAAUGCC
miR-1372262321Ahsa-miR-137UAUUGCUUAAGAAUACGCGUAG