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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for CMPK2 |
Basic gene info. | Gene symbol | CMPK2 |
Gene name | cytidine monophosphate (UMP-CMP) kinase 2, mitochondrial | |
Synonyms | TMPK2|TYKi|UMP-CMPK2 | |
Cytomap | UCSC genome browser: 2p25.2 | |
Genomic location | chr2 :6990780-7005950 | |
Type of gene | protein-coding | |
RefGenes | NM_001256477.1, NM_001256478.1,NM_207315.3,NR_046236.1, | |
Ensembl id | ENSG00000134326 | |
Description | UMP-CMP kinase 2, mitochondrialcytidylate kinase 2mitochondrial UMP-CMP kinasenucleoside-diphosphate kinasethymidine monophosphate kinase 2thymidylate kinase family LPS-inducible member | |
Modification date | 20141207 | |
dbXrefs | MIM : 611787 | |
HGNC : HGNC | ||
Ensembl : ENSG00000134326 | ||
HPRD : 11233 | ||
Vega : OTTHUMG00000151629 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_CMPK2 | |
BioGPS: 129607 | ||
Gene Expression Atlas: ENSG00000134326 | ||
The Human Protein Atlas: ENSG00000134326 | ||
Pathway | NCI Pathway Interaction Database: CMPK2 | |
KEGG: CMPK2 | ||
REACTOME: CMPK2 | ||
ConsensusPathDB | ||
Pathway Commons: CMPK2 | ||
Metabolism | MetaCyc: CMPK2 | |
HUMANCyc: CMPK2 | ||
Regulation | Ensembl's Regulation: ENSG00000134326 | |
miRBase: chr2 :6,990,780-7,005,950 | ||
TargetScan: NM_001256477 | ||
cisRED: ENSG00000134326 | ||
Context | iHOP: CMPK2 | |
cancer metabolism search in PubMed: CMPK2 | ||
UCL Cancer Institute: CMPK2 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for CMPK2(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: CMPK2 |
Familial Cancer Database: CMPK2 |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
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KEGG_PYRIMIDINE_METABOLISM |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: CMPK2 |
MedGen: CMPK2 (Human Medical Genetics with Condition) | |
ClinVar: CMPK2 | |
Phenotype | MGI: CMPK2 (International Mouse Phenotyping Consortium) |
PhenomicDB: CMPK2 |
Mutations for CMPK2 |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
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- Statistics for Tissue and Mutation type | Top |
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- For Inter-chromosomal Variations |
There's no inter-chromosomal structural variation. |
- For Intra-chromosomal Variations |
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'. |
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Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | CMPK2 | chr2 | 6996827 | 6997027 | CMPK2 | chr2 | 6997676 | 6997876 |
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract) |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows CMPK2 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=25) | (# total SNVs=13) |
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(# total SNVs=1) | (# total SNVs=0) |
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* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr2:7005369-7005369 | p.C153C | 7 |
chr2:7005324-7005324 | p.P168P | 2 |
chr2:6991653-6991653 | p.R385K | 2 |
chr2:6990070-6990070 | p.G421R | 2 |
chr2:7003675-7003675 | p.L237P | 2 |
chr2:7003685-7003685 | p.R234G | 2 |
chr2:6991587-6991587 | p.R407H | 1 |
chr2:7005148-7005148 | p.? | 1 |
chr2:6991757-6991757 | p.Q350H | 1 |
chr2:7001493-7001493 | p.V272M | 1 |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   |   |   | 1 |   |   |   |   |   |   |   | 6 | 5 |   |   |   | 7 | 1 |   | 3 |
# mutation |   |   |   | 1 |   |   |   |   |   |   |   | 6 | 5 |   |   |   | 7 | 1 |   | 4 |
nonsynonymous SNV |   |   |   | 1 |   |   |   |   |   |   |   | 6 | 3 |   |   |   | 5 |   |   | 4 |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   |   | 2 |   |   |   | 2 | 1 |   |   |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr2:6991691 | p.Y332N,CMPK2 | 1 |
chr2:7003614 | p.S325F,CMPK2 | 1 |
chr2:6991696 | p.Y307H,CMPK2 | 1 |
chr2:7003644 | p.R304I,CMPK2 | 1 |
chr2:6991699 | p.Q415L | 1 |
chr2:7003693 | p.I294M,CMPK2 | 1 |
chr2:6990087 | p.R407H,CMPK2 | 1 |
chr2:6991757 | p.T267T,CMPK2 | 1 |
chr2:7003698 | p.R407C,CMPK2 | 1 |
chr2:6991587 | p.T266I,CMPK2 | 1 |
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* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
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cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for CMPK2 |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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CMPK2,DDX58,HERC5,HERC6,IFI44,IFI44L,IFIH1, IFIT1,IFIT2,IFIT3,IFNB1,MX1,MX2,OAS1, OAS2,OAS3,OASL,PLSCR1,RSAD2,USP18,XAF1 | CMPK2,DDX58,DDX60,EPSTI1,HERC6,IFI44,IFI44L, IFI6,IFIT1,IFIT2,IFIT3,MX1,MX2,OAS1, OAS2,OAS3,OASL,PARP9,RSAD2,STAT1,XAF1 |
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CMPK2,DDX58,DDX60,EIF2AK2,HERC6,IFI44,IFI44L, IFIT1,IFIT2,IFIT3,IFIT5,MX1,MX2,OAS2, OAS3,PARP14,PARP9,RSAD2,SP110,USP18,XAF1 | APOL6,CMPK2,DTX3L,EIF2AK2,EPSTI1,HERC6,IFI35, IRF9,ISG15,OAS1,OAS3,PARP14,PARP9,PSMB10, RSAD2,SAMD9L,SP100,TAP1,TAP2,USP18,ZNFX1 |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Pharmacological Information for CMPK2 |
There's no related Drug. |
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Cross referenced IDs for CMPK2 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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