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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for POLR3C |
Basic gene info. | Gene symbol | POLR3C |
Gene name | polymerase (RNA) III (DNA directed) polypeptide C (62kD) | |
Synonyms | RPC3|RPC62 | |
Cytomap | UCSC genome browser: 1q21.1 | |
Genomic location | chr1 :145592604-145610884 | |
Type of gene | protein-coding | |
RefGenes | NM_006468.6, | |
Ensembl id | ENSG00000264806 | |
Description | DNA-directed III 62 kDa polypeptideDNA-directed RNA polymerase III subunit CDNA-directed RNA polymerase III subunit RPC3RNA polymerase III 62 kDa subunitRNA polymerase III subunit C3 | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000186141 | ||
HPRD : 17880 | ||
Vega : OTTHUMG00000013753 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_POLR3C | |
BioGPS: 10623 | ||
Gene Expression Atlas: ENSG00000264806 | ||
The Human Protein Atlas: ENSG00000264806 | ||
Pathway | NCI Pathway Interaction Database: POLR3C | |
KEGG: POLR3C | ||
REACTOME: POLR3C | ||
ConsensusPathDB | ||
Pathway Commons: POLR3C | ||
Metabolism | MetaCyc: POLR3C | |
HUMANCyc: POLR3C | ||
Regulation | Ensembl's Regulation: ENSG00000264806 | |
miRBase: chr1 :145,592,604-145,610,884 | ||
TargetScan: NM_006468 | ||
cisRED: ENSG00000264806 | ||
Context | iHOP: POLR3C | |
cancer metabolism search in PubMed: POLR3C | ||
UCL Cancer Institute: POLR3C | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for POLR3C(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: POLR3C |
Familial Cancer Database: POLR3C |
* 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: POLR3C |
MedGen: POLR3C (Human Medical Genetics with Condition) | |
ClinVar: POLR3C | |
Phenotype | MGI: POLR3C (International Mouse Phenotyping Consortium) |
PhenomicDB: POLR3C |
Mutations for POLR3C |
* 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 |
pancreas | POLR3C | chr1 | 145600642 | 145600662 | TXNIP | chr1 | 145441422 | 145441442 |
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 POLR3C 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 |
BF335120 | POLR3C | 16 | 255 | 1 | 145605925 | 145606165 | POLR3C | 247 | 390 | 1 | 145606173 | 145606316 | |
W23948 | BRK1 | 2 | 228 | 3 | 10157452 | 10168040 | POLR3C | 215 | 445 | 1 | 145601551 | 145606321 | |
BI027593 | POLR3C | 1 | 156 | 1 | 145601562 | 145601839 | POLR3C | 155 | 229 | 1 | 145598536 | 145598610 |
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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) | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
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=32) | (# total SNVs=10) |
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(# total SNVs=2) | (# 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 |
chr1:145608133-145608133 | p.Y188Y | 3 |
chr1:145594051-145594051 | p.R504H | 3 |
chr1:145594076-145594076 | p.R496C | 3 |
chr1:145601595-145601595 | p.L271I | 2 |
chr1:145592758-145592758 | p.E513K | 2 |
chr1:145601614-145601614 | p.S264S | 2 |
chr1:145601821-145601821 | p.A237G | 2 |
chr1:145608468-145608468 | p.N113N | 2 |
chr1:145608488-145608488 | p.V107I | 2 |
chr1:145608566-145608566 | p.R81W | 2 |
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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 | 3 | 2 |   | 4 | 2 |   |   |   | 1 |   |   | 4 | 1 | 3 |   |   | 2 | 3 |   | 7 |
# mutation | 3 | 2 |   | 4 | 2 |   |   |   | 1 |   |   | 8 | 1 | 3 |   |   | 2 | 3 |   | 7 |
nonsynonymous SNV | 1 | 2 |   | 4 | 1 |   |   |   | 1 |   |   | 5 |   | 1 |   |   | 2 | 2 |   | 4 |
synonymous SNV | 2 |   |   |   | 1 |   |   |   |   |   |   | 3 | 1 | 2 |   |   |   | 1 |   | 3 |
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 |
chr1:145594051 | p.R504H | 3 |
chr1:145601837 | p.S264S | 2 |
chr1:145594076 | p.G232W | 2 |
chr1:145601614 | p.R496C | 2 |
chr1:145608488 | p.N402K | 1 |
chr1:145595181 | p.E167E | 1 |
chr1:145606308 | p.V354I | 1 |
chr1:145608566 | p.P164P | 1 |
chr1:145595199 | p.V353V | 1 |
chr1:145606314 | p.G114S | 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 POLR3C |
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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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ANP32E,APH1A,CHD1L,CRTC2,DAP3,GATAD2B,GPR89A, ILF2,MRPL9,PEX11B,PI4KB,PIP5K1A,POLR3C,PRCC, PRUNE,RBM8A,RNF115,SCNM1,SETDB1,SF3B4,VPS72 | BTF3,ZFAS1,EIF3D,GNB2L1,NACA,EPB41L4A-AS1,NPM1, POLR3C,RPL11,RPL22,RPL4,RPL5,RPL6,RPL7, RPS18,RPS27A,RPS3A,RPS4X,RPS6,RPS7,SF3A3 |
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ACBD6,DIEXF,C1orf43,DAP3,DEDD,MRPL9,NUP133, NVL,POLR3C,PRUNE,RBM34,RFWD2,RNF115,RRP15, TADA1,TBCE,TFB2M,TIPRL,TOMM20,UFC1,VPS72 | C12orf10,DRG2,EIF3M,GNB2L1,PEMT,POLR3C,RNMTL1, RPL10,RPL10A,RPL12,RPL18,RPL19,RPL30,RPL32, RPL3,RPL7,RPL7A,RPUSD4,RSL1D1,TOMM20,WDR74 |
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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 POLR3C |
There's no related Drug. |
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Cross referenced IDs for POLR3C |
* 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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