Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for POLR3GL
Basic gene info.Gene symbolPOLR3GL
Gene namepolymerase (RNA) III (DNA directed) polypeptide G (32kD)-like
SynonymsRPC32HOM|flj32422
CytomapUCSC genome browser: 1q21.1
Genomic locationchr1 :145456235-145470387
Type of geneprotein-coding
RefGenesNM_032305.1,
Ensembl idENSG00000266741
DescriptionDNA-directed RNA polymerase III subunit G-likeDNA-directed RNA polymerase III subunit RPC7-likeRNA polymerase III subunit C7-likeRPC32-like proteinalternative RNA polymerase III subunit 32
Modification date20141207
dbXrefs HGNC : HGNC
Ensembl : ENSG00000121851
HPRD : 14546
Vega : OTTHUMG00000013739
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_POLR3GL
BioGPS: 84265
Gene Expression Atlas: ENSG00000266741
The Human Protein Atlas: ENSG00000266741
PathwayNCI Pathway Interaction Database: POLR3GL
KEGG: POLR3GL
REACTOME: POLR3GL
ConsensusPathDB
Pathway Commons: POLR3GL
MetabolismMetaCyc: POLR3GL
HUMANCyc: POLR3GL
RegulationEnsembl's Regulation: ENSG00000266741
miRBase: chr1 :145,456,235-145,470,387
TargetScan: NM_032305
cisRED: ENSG00000266741
ContextiHOP: POLR3GL
cancer metabolism search in PubMed: POLR3GL
UCL Cancer Institute: POLR3GL
Assigned class in ccmGDBC

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Phenotypic Information for POLR3GL(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: POLR3GL
Familial Cancer Database: POLR3GL
* This gene is included in those cancer gene databases.

.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
KEGG_PURINE_METABOLISM
KEGG_PYRIMIDINE_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: POLR3GL
MedGen: POLR3GL (Human Medical Genetics with Condition)
ClinVar: POLR3GL
PhenotypeMGI: POLR3GL (International Mouse Phenotyping Consortium)
PhenomicDB: POLR3GL

Mutations for POLR3GL
* 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows POLR3GL related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

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check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample   1    1        
GAIN (# sample)   1    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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check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=16)
Stat. for Synonymous SNVs
(# total SNVs=9)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

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check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr1:145460201-145460201p.R8R3
chr1:145459666-145459666p.A81V2
chr1:145456645-145456645p.I217V2
chr1:145459652-145459652p.D86N1
chr1:145457015-145457015p.E182D1
chr1:145457040-145457042p.E174delE1
chr1:145459737-145459737p.G57G1
chr1:145457307-145457307p.I129V1
chr1:145459750-145459750p.S53L1
chr1:145457308-145457308p.R128R1

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 4 2        1      4
# mutation 4 2        1      4
nonsynonymous SNV 3 2               2
synonymous SNV 1          1      2
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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check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chr1:145457582p.D214D1
chr1:145457935p.E182D1
chr1:145457947p.R128R1
chr1:145457994p.R128R1
chr1:145459652p.E116D1
chr1:145459666p.D109H1
chr1:145460115p.D105N1
chr1:145456652p.R89H1
chr1:145460194p.D86N1
chr1:145457015p.A81V1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy Number for POLR3GL 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 POLR3GL

check002.gifGene 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.

check002.gifDifferential 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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check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


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Gene-Gene Network Information
check002.gifCo-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

: Open all plots for all cancer types

COMMD6,GABARAP,GNAI2,ISCU,MVP,PBXIP1,PEX11B,
PFDN5,PMF1,POLR3GL,PPM1M,RAB13,RILPL2,LAMTOR2,
RRAS,SNAPIN,STX4,STX8,THYN1,TMEM219,TNFSF12
ACAA2,ALDH2,ANXA6,ADIRF,C1orf123,CAMK1,CD99L2,
GABARAPL1,GYPC,IAH1,INPP5K,NDN,PJA1,PLA2G16,
POLR3GL,PPP1R1A,ST6GALNAC6,TMBIM1,EMC3,VEGFB,VTI1B

AIDA,C10orf10,LINC00467,DISP1,FAM114A2,DENND6B,GABARAP,
LIX1L,PBXIP1,PHF1,PIAS3,POLR3GL,RAB13,S100A13,
SDC3,SLC27A1,TK2,TLR5,TNFSF12,TXNIP,ZNF438
AMZ2P1,ARL3,BEX4,C11orf74,CDPF1,CBY1,COMMD6,
ISCU,MEAF6,MRFAP1L1,MSTN,PAIP2,PCMTD1,POLR3GL,
RAP1A,RGS10,ZFP2,ZNF415,ZNF433,ZNF626,ZNF691
check002.gifCo-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

: Open all plots for all cancer types

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check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

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Pharmacological Information for POLR3GL


There's no related Drug.
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Cross referenced IDs for POLR3GL
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section

: Open all cross reference information



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