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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for POLR2C |
Basic gene info. | Gene symbol | POLR2C |
Gene name | polymerase (RNA) II (DNA directed) polypeptide C, 33kDa | |
Synonyms | RPB3|RPB31|hRPB33|hsRPB3 | |
Cytomap | UCSC genome browser: 16q13-q21 | |
Genomic location | chr16 :57496550-57505921 | |
Type of gene | protein-coding | |
RefGenes | NM_032940.2, NM_002694.2, | |
Ensembl id | ENSG00000102978 | |
Description | DNA-directed RNA polymerase II 33 kDa polypeptideDNA-directed RNA polymerase II subunit CDNA-directed RNA polymerase II subunit RPB3RNA polymerase II subunit 3RNA polymerase II subunit B3RPB33 | |
Modification date | 20141207 | |
dbXrefs | MIM : 180663 | |
HGNC : HGNC | ||
Ensembl : ENSG00000102978 | ||
HPRD : 15945 | ||
Vega : OTTHUMG00000133464 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_POLR2C | |
BioGPS: 5432 | ||
Gene Expression Atlas: ENSG00000102978 | ||
The Human Protein Atlas: ENSG00000102978 | ||
Pathway | NCI Pathway Interaction Database: POLR2C | |
KEGG: POLR2C | ||
REACTOME: POLR2C | ||
ConsensusPathDB | ||
Pathway Commons: POLR2C | ||
Metabolism | MetaCyc: POLR2C | |
HUMANCyc: POLR2C | ||
Regulation | Ensembl's Regulation: ENSG00000102978 | |
miRBase: chr16 :57,496,550-57,505,921 | ||
TargetScan: NM_032940 | ||
cisRED: ENSG00000102978 | ||
Context | iHOP: POLR2C | |
cancer metabolism search in PubMed: POLR2C | ||
UCL Cancer Institute: POLR2C | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for POLR2C(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: POLR2C |
Familial Cancer Database: POLR2C |
* 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/ |
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KEGG_PURINE_METABOLISM KEGG_PYRIMIDINE_METABOLISM |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: POLR2C |
MedGen: POLR2C (Human Medical Genetics with Condition) | |
ClinVar: POLR2C | |
Phenotype | MGI: POLR2C (International Mouse Phenotyping Consortium) |
PhenomicDB: POLR2C |
Mutations for POLR2C |
* 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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There's no structural variation information in COSMIC data for this gene. |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows POLR2C 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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Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
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Stat. for Non-Synonymous SNVs (# total SNVs=13) | (# total SNVs=10) |
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(# total SNVs=0) | (# 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 |
chr16:57503178-57503178 | p.L120L | 2 |
chr16:57496641-57496641 | p.P2L | 1 |
chr16:57504990-57504990 | p.L263V | 1 |
chr16:57503194-57503194 | p.R126W | 1 |
chr16:57503976-57503976 | p.G181G | 1 |
chr16:57499902-57499902 | p.V58V | 1 |
chr16:57505025-57505025 | p.I274I | 1 |
chr16:57503195-57503195 | p.R126Q | 1 |
chr16:57504027-57504027 | p.P198P | 1 |
chr16:57500137-57500137 | p.R86W | 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 | 2 | 1 | 1 | 2 |   |   |   |   | 1 |   |   | 5 |   | 2 |   |   | 1 | 3 |   | 5 |
# mutation | 2 | 1 | 1 | 2 |   |   |   |   | 1 |   |   | 7 |   | 2 |   |   | 1 | 3 |   | 5 |
nonsynonymous SNV | 2 |   |   | 1 |   |   |   |   |   |   |   | 4 |   | 2 |   |   | 1 | 2 |   | 5 |
synonymous SNV |   | 1 | 1 | 1 |   |   |   |   | 1 |   |   | 3 |   |   |   |   |   | 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 |
chr16:57500138 | p.R86L | 2 |
chr16:57496641 | p.Y208H | 1 |
chr16:57503186 | p.E96K | 1 |
chr16:57504902 | p.S98S | 1 |
chr16:57500137 | p.S209L | 1 |
chr16:57503195 | p.T102A | 1 |
chr16:57504908 | p.S216S | 1 |
chr16:57503632 | p.T112M | 1 |
chr16:57504925 | p.V233V | 1 |
chr16:57503104 | p.T112T | 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 POLR2C |
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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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AARS,ARL2BP,CFAP20,CIAPIN1,COQ9,CSNK2A2,CYB5B, DDX19B,EXOSC6,FAM192A,KATNB1,IST1,NAE1,NUDT21, NUP93,OGFOD1,POLR2C,PSMD7,SETD6,USP10,VPS4A | CDKN2AIPNL,CNBP,CWC15,FAM162A,HAX1,KARS,MRPL40, MRPS18B,MRPS22,MRPS7,MRPS9,NDUFA1,NDUFB4,NDUFB9, NDUFC1,NSFL1C,POLR2C,RNF7,SRP68,TOMM7,UBB |
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FOPNL,CFAP20,CIAPIN1,CIRH1A,DNAJA2,DNAJA3,EXOSC5, FAM96B,HSBP1,MRPS23,NAE1,NIP7,NUDT16L1,NUTF2, POLR2C,POLR2G,PPP4C,PSMD7,ROMO1,PAM16,TIMM50 | IFT43,OSER1,CALM2,CKLF,FIS1,GSTO1,HAX1, LAMTOR5,LINC00493,LSM1,MYEOV2,NDUFB6,POLR2C,PSMB1, PSMD8,PSMD9,RNF181,SELK,TRAPPC3,UBL5,ZNF410 |
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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 POLR2C |
There's no related Drug. |
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Cross referenced IDs for POLR2C |
* 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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