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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for POLR2K |
Basic gene info. | Gene symbol | POLR2K |
Gene name | polymerase (RNA) II (DNA directed) polypeptide K, 7.0kDa | |
Synonyms | ABC10-alpha|RPABC4|RPB10alpha|RPB12|RPB7.0|hRPB7.0|hsRPB10a | |
Cytomap | UCSC genome browser: 8q22.2 | |
Genomic location | chr8 :101162838-101166230 | |
Type of gene | protein-coding | |
RefGenes | NM_005034.3, | |
Ensembl id | ENSG00000147669 | |
Description | DNA directed RNA polymerases I, II, and III 7.0 kda polypeptideDNA-directed RNA polymerase II subunit KDNA-directed RNA polymerases I, II, and III subunit RPABC4RNA polymerase II 7.0 kDa subunitRNA polymerases I, II, and III subunit ABC4 | |
Modification date | 20141207 | |
dbXrefs | MIM : 606033 | |
HGNC : HGNC | ||
Ensembl : ENSG00000147669 | ||
HPRD : 05826 | ||
Vega : OTTHUMG00000164705 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_POLR2K | |
BioGPS: 5440 | ||
Gene Expression Atlas: ENSG00000147669 | ||
The Human Protein Atlas: ENSG00000147669 | ||
Pathway | NCI Pathway Interaction Database: POLR2K | |
KEGG: POLR2K | ||
REACTOME: POLR2K | ||
ConsensusPathDB | ||
Pathway Commons: POLR2K | ||
Metabolism | MetaCyc: POLR2K | |
HUMANCyc: POLR2K | ||
Regulation | Ensembl's Regulation: ENSG00000147669 | |
miRBase: chr8 :101,162,838-101,166,230 | ||
TargetScan: NM_005034 | ||
cisRED: ENSG00000147669 | ||
Context | iHOP: POLR2K | |
cancer metabolism search in PubMed: POLR2K | ||
UCL Cancer Institute: POLR2K | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for POLR2K(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: POLR2K |
Familial Cancer Database: POLR2K |
* This gene is included in those cancer gene databases. |
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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/ |
Metabolic Pathway Description | |
KEGG_PURINE_METABOLISM KEGG_PYRIMIDINE_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: POLR2K |
MedGen: POLR2K (Human Medical Genetics with Condition) | |
ClinVar: POLR2K | |
Phenotype | MGI: POLR2K (International Mouse Phenotyping Consortium) |
PhenomicDB: POLR2K |
Mutations for POLR2K |
* 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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows POLR2K 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 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=6) | (# total SNVs=0) |
(# total SNVs=0) | (# total SNVs=0) |
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Top 10 SNVs Having the Most Samples in COSMIC data |
* 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 |
chr8:101163645-101163645 | p.? | 1 |
chr8:101164063-101164063 | p.E25K | 1 |
chr8:101164109-101164109 | p.G40E | 1 |
chr8:101164143-101164143 | p.R51S | 1 |
chr8:101165527-101165527 | p.V54I | 1 |
chr8:101165540-101165540 | p.R58Q | 1 |
chr8:101163599-101163599 | p.D6Y | 1 |
chr8:101163632-101163632 | p.Y17H | 1 |
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SNV Counts per Each Loci in TCGA data |
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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 |   |   |   |   |   | 1 |   | 2 |
# mutation |   |   |   |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   | 1 |   | 2 |
nonsynonymous SNV |   |   |   |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   | 1 |   | 2 |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
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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Top 10 SNVs Having the Most Samples in TCGA data |
* 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 |
chr8:101165527 | p.G40E | 1 |
chr8:101165540 | p.V54I | 1 |
chr8:101164063 | p.R58Q | 1 |
chr8:101164109 | p.E25K | 1 |
Other DBs for Point Mutations |
Copy Number for POLR2K in TCGA |
* 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. |
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 POLR2K |
Gene Expression in Cancer Cell-lines (CCLE) |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
Differential Gene Expression in Primary Tumors (TCGA) |
* 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-Expressed gene's network Plot |
* 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 |
ANKRD46,ATP6V1C1,AZIN1,C8orf76,COPS5,DCAF13,EBAG9, ENY2,RMDN1,HRSP12,INTS8,MRPL13,MTERF3,NSMCE2, POLR2K,TCEB1,TMEM70,EMC2,UQCRB,YWHAZ,ZNF706 | C18orf32,C8orf59,CALM2,DAD1,GTF2A2,LAPTM4A,LSM12, PDCD10,POLR2K,PSMD10,SELT,SEP15,SKP1,SNRPB2, SUMO1,SUMO2,TAF9,TMEM59,UBE2N,UNC50,ZNF706 |
ANKRD46,AZIN1,NDUFAF6,C8orf59,COPS5,DCAF13,EBAG9, ENY2,MED30,MRPL13,MTERF3,NDUFB9,NSMCE2,NUDCD1, OTUD6B,POLR2K,SLC25A32,TATDN1,TCEB1,EMC2,ZNF706 | FAM204A,C11orf58,COMMD10,COMMD2,COPS3,DNAJC8,ENY2, ERH,METTL5,MOB4,MRPL33,NDUFA4,POLR2K,RCN2, RSL24D1,RWDD1,SNRPB2,SUB1,TMEM50B,TSNAX,VBP1 |
Co-Expressed gene's Protein-protein interaction Network Plot |
* 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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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for POLR2K |
There's no related Drug. |
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Cross referenced IDs for POLR2K |
* 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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