Gene Page:CDK13

Summary?
GeneID 8621
Symbol CDK13
Synonyms CDC2L|CDC2L5|CHED|hCDK13
Description cyclin-dependent kinase 13
Reference MIM:603309|HGNC:HGNC:1733|Ensembl:ENSG00000065883|HPRD:04496|Vega:OTTHUMG00000023726
Gene type protein-coding
Map location 7p13
Pascal p-value 0.607
Sherlock p-value 0.659
Fetal beta 1.727
DMG 2 (# studies)

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DMG:Jaffe_2016 Genome-wide DNA methylation analysis This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 2
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 2

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg02853322 7 39989723 CDK13 4.744E-4 -0.317 0.046 DMG:Wockner_2014
cg09470376 7 39991217 CDK13 5.62E-9 0.007 3.08E-6 DMG: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
死神:胎儿(13 - 26 postconception周),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
USP47 0.95 0.96
TOPORS 0.95 0.94
CTR9 0.94 0.95
NOL8 0.94 0.94
ZNF644 0.94 0.95
SR140 0.94 0.94
SUPT16H 0.93 0.95
ZNF225 0.93 0.93
ZNF280D 0.93 0.92
SIRT1 0.93 0.93
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AF347015.31 -0.75 -0.86
MT-CO2 -0.74 -0.85
IFI27 -0.74 -0.86
FXYD1 -0.74 -0.84
AF347015.27 -0.73 -0.82
AF347015.33 -0.71 -0.81
HIGD1B -0.71 -0.83
MT-CYB -0.71 -0.81
AF347015.8 -0.70 -0.83
HLA-F -0.70 -0.74

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0004693 cyclin-dependent protein kinase activity IEA neuron (GO term level: 8) -
GO:0000166 nucleotide binding IEA -
GO:0005524 ATP binding IEA -
GO:0004674 protein serine/threonine kinase activity IEA -
GO:0016740 transferase activity IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0006468 protein amino acid phosphorylation IEA -
GO:0007088 regulation of mitosis TAS 1731328
GO:0008284 positive regulation of cell proliferation TAS 1731328
GO:0007275 multicellular organismal development TAS 1731328

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS DN 463 290 All SZGR 2.0 genes in this pathway
RODRIGUES NTN1 TARGETS DN 158 102 All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP 1278 748 All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN 805 505 All SZGR 2.0 genes in this pathway
NUNODA RESPONSE TO DASATINIB IMATINIB UP 29 20 All SZGR 2.0 genes in this pathway
通过ERCC3滑落紫外线反应DN 855 609 All SZGR 2.0 genes in this pathway
通过ERCC3滑落紫外线反应COMMON DN 483 336 All SZGR 2.0 genes in this pathway
HEIDENBLAD AMPLICON 12P11 12 DN 30 16 All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 1652 1023 All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442 892 All SZGR 2.0 genes in this pathway
LIU COMMON CANCER GENES 79 47 All SZGR 2.0 genes in this pathway
LIAO METASTASIS 539 324 All SZGR 2.0 genes in this pathway
SCHWAB TARGETS OF BMYB POLYMORPHIC VARIANTS DN 17 12 All SZGR 2.0 genes in this pathway
SASAKI ADULT T CELL LEUKEMIA 176 122 All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP 555 346 All SZGR 2.0 genes in this pathway
HADDAD B LYMPHOCYTE PROGENITOR 293 193 All SZGR 2.0 genes in this pathway
KANG IMMORTALIZED BY TERT UP 89 61 All SZGR 2.0 genes in this pathway
THEILGAARD NEUTROPHIL AT SKIN WOUND DN 225 163 All SZGR 2.0 genes in this pathway
MOREAUX MULTIPLE MYELOMA BY TACI UP 412 249 All SZGR 2.0 genes in this pathway
NATSUME RESPONSE TO INTERFERON BETA UP 71 49 All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE UP 249 170 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 1691 1088 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 48HR DN 504 323 All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE DN 373 196 All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB UP 245 159 All SZGR 2.0 genes in this pathway
LEE DIFFERENTIATING T LYMPHOCYTE 200 115 All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS UNANNOTATED UP 85 50 All SZGR 2.0 genes in this pathway
STAMBOLSKY TARGETS OF MUTATED TP53 UP 49 35 All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 2 DN 336 211 All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D 882 506 All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839 928 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-133 348 354 1A hsa-miR-133a UUGGUCCCCUUCAACCAGCUGU
hsa-miR-133b UUGGUCCCCUUCAACCAGCUA
miR-141/200a 488 495 1A,m8 hsa-miR-141 UAACACUGUCUGGUAAAGAUGG
hsa-miR-200a UAACACUGUCUGGUAACGAUGU
miR-148/152 410 416 1A hsa-miR-148a UCAGUGCACUACAGAACUUUGU
hsa-miR-152brain UCAGUGCAUGACAGAACUUGGG
hsa-miR-148b UCAGUGCAUCACAGAACUUUGU
miR-153 317 323 m8 hsa-miR-153 UUGCAUAGUCACAAAAGUGA
miR-19 474 480 m8 hsa-miR-19a UGUGCAAAUCUAUGCAAAACUGA
hsa-miR-19b UGUGCAAAUCCAUGCAAAACUGA
miR-26 79 85 1A hsa-miR-26abrain UUCAAGUAAUCCAGGAUAGGC
hsa-miR-26bSZ UUCAAGUAAUUCAGGAUAGGUU
miR-320 103 110 1A,m8 hsa-miR-320 AAAAGCUGGGUUGAGAGGGCGAA
miR-335 546 552 1A hsa-miR-335brain UCAAGAGCAAUAACGAAAAAUGU
miR-455 18 24 m8 hsa-miR-455 UAUGUGCCUUUGGACUACAUCG
miR-488 31 38 1A,m8 hsa-miR-488 CCCAGAUAAUGGCACUCUCAA