Gene Page: KCND3

Summary ?
GeneID3752
SymbolKCND3
SynonymsBRGDA9|KCND3L|KCND3S|KSHIVB|KV4.3|SCA19|SCA22
Descriptionpotassium voltage-gated channel subfamily D member 3
ReferenceMIM:605411|HGNC:HGNC:6239|Ensembl:ENSG00000171385|HPRD:16104|Vega:OTTHUMG00000011989
Gene typeprotein-coding
Map location1p13.3
Pascal p-value1.238E-4
Fetal beta-0.212
DMG2 (# studies)

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
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. 3
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 3
GSMA_IGenome scan meta-analysisPsr: 0.0235 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg077239211112531332KCND33.333E-40.3640.041DMG:Wockner_2014
cg152119081112531263KCND33.488E-40.5260.041DMG:Wockner_2014
cg119470111112531838KCND33.87E-8-0.0171.1E-5DMG:Jaffe_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
SLC2A60.780.81
SLC45A10.780.85
SYNGR30.780.81
SLC27A40.770.85
MGAT5B0.770.85
CYB5610.760.79
SYT70.760.80
TMEM8B0.760.79
GABBR20.760.77
ABCG40.750.79
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AL139819.3-0.42-0.49
AF347015.18-0.39-0.40
AF347015.8-0.39-0.39
NSBP1-0.39-0.46
AP002478.3-0.39-0.46
MT-ATP8-0.38-0.39
RAB13-0.38-0.48
AF347015.21-0.38-0.38
AF347015.26-0.37-0.33
AF347015.31-0.36-0.37

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0005515protein bindingIEA-
GO:0005244voltage-gated ion channel activityIEA-
GO:0005249voltage-gated potassium channel activityIEA-
GO:0005250A-type (transient outward) potassium channel activityTAS8734615 
GO:0008270zinc ion bindingIEA-
GO:0030955potassium ion bindingIEA-
GO:0046872metal ion bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006811ion transportIEA-
GO:0006813potassium ion transportTAS8734615 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0016020membraneIEA-
GO:0016021integral to membraneIEA-
GO:0008076voltage-gated potassium channel complexTAS8734615 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
REACTOME NEURONAL SYSTEM 279221All SZGR 2.0 genes in this pathway
REACTOME VOLTAGE GATED POTASSIUM CHANNELS 4332All SZGR 2.0 genes in this pathway
REACTOME POTASSIUM CHANNELS 9868All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP 783507All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP 332228All SZGR 2.0 genes in this pathway
JAEGER METASTASIS DN 258141All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE UP 530342All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS DN 193112All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM5 9459All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038678All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062725All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118744All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS 652441All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY NO BLOOD UP 222139All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY UP 487303All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 UP 428266All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL AND PROGENITOR 681420All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN 434302All SZGR 2.0 genes in this pathway
SMID BREAST CANCER NORMAL LIKE UP 476285All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701446All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP 1305895All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 36HR UP 221150All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 HCP WITH H3K27ME3 435318All SZGR 2.0 genes in this pathway
MIKKELSEN IPS HCP WITH H3 UNMETHYLATED 8050All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA DN 267160All SZGR 2.0 genes in this pathway
MIKKELSEN ES HCP WITH H3K27ME3 4130All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3 590403All SZGR 2.0 genes in this pathway
KARLSSON TGFB1 TARGETS DN 207139All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS DN 882538All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-148/1521271331Ahsa-miR-148aUCAGUGCACUACAGAACUUUGU
hsa-miR-152brainUCAGUGCAUGACAGAACUUGGG
hsa-miR-148bUCAGUGCAUCACAGAACUUUGU