Gene Page:CNTN3

Summary?
GeneID 5067
Symbol CNTN3
Synonyms BIG-1|PANG|PCS
Description contactin 3
Reference MIM:601325|HGNC:HGNC:2173|Ensembl:ENSG00000113805|Vega:OTTHUMG00000158813
Gene type protein-coding
Map location 3p12.3
Pascal p-value 0.051
TADA p-value 0.002
Fetal beta 0.797
eGene Caudate basal ganglia
Nucleus accumbens basal ganglia
Support CELL ADHESION AND TRANSSYNAPTIC SIGNALING
CompositeSet

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DNM:Fromer_2014 Whole Exome Sequencing analysis This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
PMID:cooccur High-throughput literature-search 系统的烤焦ch in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_IIE Genome scan meta-analysis (European-ancestry samples) Psr: 0.04359
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.04047
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@DNM table

Gene Chromosome Position Ref Alt Transcript AA change Mutation type Sift CG46 Trait Study
CNTN3 chr3 74334644 T A NM_020872
NM_020872		 .
.		 intronic
splice-acceptor-in2		 Schizophrenia DNM:Fromer_2014


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
Gene Pearson's Correlation Spearman's Correlation
AP000751.3 0.92 0.91
CAMTA1 0.90 0.90
BSN 0.89 0.87
SCN8A 0.89 0.87
HCN1 0.89 0.88
DLGAP1 0.89 0.86
SORL1 0.88 0.82
ADAM22 0.88 0.88
ATP2B2 0.88 0.87
PLCB1 0.88 0.84
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
RAB34 -0.48 -0.56
DBI -0.45 -0.57
C1orf61 -0.45 -0.64
EFEMP2 -0.44 -0.44
RAB13 -0.44 -0.53
SAT1 -0.41 -0.55
C1orf54 -0.41 -0.56
GNG11 -0.40 -0.54
EIF4EBP3 -0.40 -0.47
PECI -0.40 -0.44

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005515 protein binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0007155 cell adhesion IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005886 plasma membrane IEA -
GO:0031225 anchored to membrane IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
NEWMAN ERCC6 TARGETS DN 39 24 All SZGR 2.0 genes in this pathway
LEE CALORIE RESTRICTION NEOCORTEX DN 88 58 All SZGR 2.0 genes in this pathway
CHANDRAN METASTASIS DN 306 191 All SZGR 2.0 genes in this pathway
国外RB1增长目标 243 155 All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT 567 365 All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 DN 448 282 All SZGR 2.0 genes in this pathway
BRIDEAU IMPRINTED GENES 63 47 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-124.1 177 184 1A,m8 hsa-miR-124a UUAAGGCACGCGGUGAAUGCCA
miR-124/506 177 183 1A hsa-miR-506 UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brain UAAGGCACGCGGUGAAUGCC
miR-299-5p 196 202 1A hsa-miR-299-5p UGGUUUACCGUCCCACAUACAU
miR-329 1770 1776 1A hsa-miR-329brain AACACACCUGGUUAACCUCUUU
miR-9 199 205 m8 hsa-miR-9SZ UCUUUGGUUAUCUAGCUGUAUGA