Gene Page: CDK5RAP2

Summary ?
GeneID55755
SymbolCDK5RAP2
SynonymsC48|Cep215|MCPH3
DescriptionCDK5 regulatory subunit associated protein 2
ReferenceMIM:608201|HGNC:HGNC:18672|Ensembl:ENSG00000136861|HPRD:09740|Vega:OTTHUMG00000021043
Gene typeprotein-coding
Map location9q33.2
Pascal p-value0.084
Sherlock p-value0.933
Fetal beta0.718
DMG1 (# studies)
eGeneNucleus accumbens basal ganglia
Myers' cis & trans
Meta
SupportAscano FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWAScatGenome-wide Association StudiesThis data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Nishioka_2013Genome-wide DNA methylation analysisThe authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls. 1
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 3 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg125767009123342680CDK5RAP2-0.0240.39DMG:Nishioka_2013

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs872423chr9123149490CDK5RAP2557555.781E-5cis
rs10119527chr9123161933CDK5RAP2557557.594E-5cis
rs12379034chr9123162665CDK5RAP2557557.766E-6cis
rs12376337chr9123162794CDK5RAP2557557.766E-6cis
rs1547266chr9123163475CDK5RAP2557551.943E-4cis
rs3780674chr9123166918CDK5RAP2557551.943E-4cis
rs16909765chr9123172517CDK5RAP2557559.082E-4cis
rs872423chr9123149490CDK5RAP2557550.01trans
rs10119527chr9123161933CDK5RAP2557550.01trans
rs12379034chr9123162665CDK5RAP2557550trans
rs1547266chr9123163475CDK5RAP2557550.02trans
rs3780674chr9123166918CDK5RAP2557550.02trans
rs16909765chr9123172517CDK5RAP2557550.07trans
rs17687831chr10103134632CDK5RAP2557550.09trans
rs10883648chr10103185180CDK5RAP2557550.09trans
rs10883649chr10103186585CDK5RAP2557550.13trans
rs12248356chr10103197718CDK5RAP2557550.14trans
rs4436485chr10103245360CDK5RAP2557550.07trans
rs3095798chr10103299266CDK5RAP2557550.09trans
rs2586047chr1755959943CDK5RAP2557550.09trans

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
LRRC40.800.81
SLITRK10.790.84
TMEM1780.780.82
ITPK10.780.78
LARGE0.780.81
A2BP10.770.78
BCAS30.770.79
CDH220.770.80
SH3GL20.770.81
SIPA1L10.760.78
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
DBI-0.54-0.60
AF347015.21-0.49-0.42
RAB34-0.49-0.55
RHOC-0.49-0.53
AP002478.3-0.49-0.50
PSME2-0.48-0.50
NSBP1-0.47-0.51
GNG11-0.47-0.47
AF347015.18-0.46-0.42
AL139819.3-0.46-0.47

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0042808neuronal Cdc2-like kinase bindingIPIneuron (GO term level: 7)10721722 
GO:0008017microtubule bindingIDA14654843 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007420brain developmentNASBrain (GO term level: 7)10915792 
GO:0045664regulation of neuron differentiationNASneuron, neurogenesis (GO term level: 9)10721722 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005813centrosomeIDA14654843 
GO:0005856cytoskeletonNAS10721722 

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
ABCA2ABC2 | MGC129761ATP-binding cassette, sub-family A (ABC1), member 2-HPRD12421765 
C14orf1ERG28 | NET51chromosome 14 open reading frame 1Two-hybridBioGRID16169070 
C7orf64DKFZP564O0523 | DKFZp686D1651 | HSPC304chromosome 7 open reading frame 64Two-hybridBioGRID16169070 
CDK5PSSALREcyclin-dependent kinase 5Reconstituted ComplexBioGRID10915792 
CDK5R1CDK5P35 | CDK5R | MGC33831 | NCK5A | p23 | p25 | p35 | p35nck5acyclin-dependent kinase 5, regulatory subunit 1 (p35)in vitro
in vivo
Reconstituted Complex		BioGRID10915792 |11882646 
CDK5R1CDK5P35 | CDK5R | MGC33831 | NCK5A | p23 | p25 | p35 | p35nck5acyclin-dependent kinase 5, regulatory subunit 1 (p35)-HPRD10721722 
CRMP1DPYSL1 | DRP-1 | DRP1collapsin response mediator protein 1Two-hybridBioGRID16169070 
EEF1GEF1G | GIG35eukaryotic translation elongation factor 1 gammaTwo-hybridBioGRID16169070 
HAP1HAP2 | HIP5 | HLP | hHLP1huntingtin-associated protein 1Two-hybridBioGRID16169070 
KAT5ESA1 | HTATIP | HTATIP1 | PLIP | TIP | TIP60 | cPLA2K(lysine) acetyltransferase 5Two-hybridBioGRID16169070 
LUC7L2CGI-59 | CGI-74 | FLJ10657 | LUC7B2LUC7-like 2 (S. cerevisiae)Two-hybridBioGRID16169070 
MAGEH1APR-1 | APR1 | MAGEHmelanoma antigen family H, 1Two-hybridBioGRID16169070 
PTNHARP | HBGF8 | HBNF | NEGF1pleiotrophinTwo-hybridBioGRID16169070 
SENP2AXAM2 | DKFZp762A2316 | KIAA1331 | SMT3IP2SUMO1/sentrin/SMT3 specific peptidase 2Two-hybridBioGRID16169070 
STARD9DKFZp781J069 | FLJ16106 | FLJ21936 | KIAA1300StAR-related lipid transfer (START) domain containing 9Two-hybridBioGRID16169070 
TBC1D4AS160 | DKFZp779C0666TBC1 domain family, member 4-HPRD12421765 
ZNF259MGC110983 | ZPR1zinc finger protein 259Two-hybridBioGRID16169070 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
REACTOME CELL CYCLE 421253All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE MITOTIC 325185All SZGR 2.0 genes in this pathway
REACTOME RECRUITMENT OF MITOTIC CENTROSOME PROTEINS AND COMPLEXES 6643All SZGR 2.0 genes in this pathway
REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES 5938All SZGR 2.0 genes in this pathway
REACTOME MITOTIC G2 G2 M PHASES 8150All SZGR 2.0 genes in this pathway
COLDREN GEFITINIB RESISTANCE UP 8557All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 2A DN 14184All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN 17811082All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER WITH LOH IN CHR9Q 11671All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS DN 1024594All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN 514330All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 UP 256159All SZGR 2.0 genes in this pathway
MARIADASON RESPONSE TO BUTYRATE SULINDAC 6 5232All SZGR 2.0 genes in this pathway
MARSON BOUND BY E2F4 UNSTIMULATED 728415All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING 510309All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR UP 294199All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS SENESCENT 572352All SZGR 2.0 genes in this pathway