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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for CCT5 |
Basic gene info. | Gene symbol | CCT5 |
Gene name | chaperonin containing TCP1, subunit 5 (epsilon) | |
Synonyms | CCT-epsilon|CCTE|HEL-S-69|TCP-1-epsilon | |
Cytomap | UCSC genome browser: 5p15.2 | |
Genomic location | chr5 :10250281-10266501 | |
Type of gene | protein-coding | |
RefGenes | NM_012073.3, | |
Ensembl id | ENSG00000150753 | |
Description | T-complex protein 1 subunit epsilonT-complex protein 1, epsilon subunitepididymis secretory protein Li 69 | |
Modification date | 20141222 | |
dbXrefs | MIM : 610150 | |
HGNC : HGNC | ||
Ensembl : ENSG00000150753 | ||
HPRD : 06468 | ||
Vega : OTTHUMG00000131042 | ||
Protein | UniProt: P48643 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_CCT5 | |
BioGPS: 22948 | ||
Gene Expression Atlas: ENSG00000150753 | ||
The Human Protein Atlas: ENSG00000150753 | ||
Pathway | NCI Pathway Interaction Database: CCT5 | |
KEGG: CCT5 | ||
REACTOME: CCT5 | ||
ConsensusPathDB | ||
Pathway Commons: CCT5 | ||
Metabolism | MetaCyc: CCT5 | |
HUMANCyc: CCT5 | ||
Regulation | Ensembl's Regulation: ENSG00000150753 | |
miRBase: chr5 :10,250,281-10,266,501 | ||
TargetScan: NM_012073 | ||
cisRED: ENSG00000150753 | ||
Context | iHOP: CCT5 | |
cancer metabolism search in PubMed: CCT5 | ||
UCL Cancer Institute: CCT5 | ||
Assigned class in ccmGDB | B - This gene belongs to cancer gene. |
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Phenotypic Information for CCT5(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: CCT5 |
Familial Cancer Database: CCT5 |
* 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 | |
REACTOME_METABOLISM_OF_PROTEINS |
Others | |
OMIM | 256840; phenotype. 610150; gene. |
Orphanet | 139578; Hereditary sensory and autonomic neuropathy with spastic paraplegia. |
Disease | KEGG Disease: CCT5 |
MedGen: CCT5 (Human Medical Genetics with Condition) | |
ClinVar: CCT5 | |
Phenotype | MGI: CCT5 (International Mouse Phenotyping Consortium) |
PhenomicDB: CCT5 |
Mutations for CCT5 |
* 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 CCT5 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 |
AW105324 | SEC61A1 | 1 | 193 | 3 | 127790242 | 127790434 | CCT5 | 190 | 315 | 5 | 10262662 | 10263302 | |
BU160000 | CCT5 | 15 | 107 | 5 | 10262592 | 10262684 | CCT5 | 108 | 717 | 5 | 10262660 | 10265125 | |
BE078213 | CCT5 | 9 | 350 | 5 | 10256066 | 10258363 | CCT5 | 351 | 478 | 5 | 10258550 | 10260932 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
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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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=40) | (# total SNVs=15) |
(# 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 |
chr5:10262702-10262702 | p.A430V | 3 |
chr5:10263331-10263331 | p.M468R | 2 |
chr5:10263358-10263358 | p.V477D | 2 |
chr5:10262705-10262705 | p.L431Q | 2 |
chr5:10261684-10261684 | p.A336T | 2 |
chr5:10258621-10258621 | p.E283* | 1 |
chr5:10254889-10254889 | p.L90L | 1 |
chr5:10261739-10261739 | p.G354D | 1 |
chr5:10256204-10256204 | p.V157F | 1 |
chr5:10262693-10262693 | p.I427T | 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 | 4 | 1 |   | 12 | 1 |   | 4 |   | 1 | 1 |   | 4 | 2 | 3 |   | 1 | 6 | 5 |   | 7 |
# mutation | 4 | 1 |   | 9 | 1 |   | 4 |   | 1 | 1 |   | 8 | 2 | 3 |   | 1 | 6 | 5 |   | 10 |
nonsynonymous SNV | 3 | 1 |   | 6 | 1 |   | 3 |   |   | 1 |   | 5 | 1 | 3 |   |   | 5 | 4 |   | 6 |
synonymous SNV | 1 |   |   | 3 |   |   | 1 |   | 1 |   |   | 3 | 1 |   |   | 1 | 1 | 1 |   | 4 |
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 |
chr5:10261684 | p.A336T | 3 |
chr5:10262702 | p.L431Q | 2 |
chr5:10262705 | p.A430V | 2 |
chr5:10260965 | p.A8T | 1 |
chr5:10254942 | p.K150N | 1 |
chr5:10262642 | p.I341I | 1 |
chr5:10256236 | p.L431V | 1 |
chr5:10263288 | p.D10H | 1 |
chr5:10254948 | p.T162T | 1 |
chr5:10262652 | p.T349I | 1 |
Other DBs for Point Mutations |
Copy Number for CCT5 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 CCT5 |
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 |
BIRC5,BRIX1,CCNB1,CCNB2,CCT5,CDC25A,CLPTM1L, EPR1,FANCB,KIF20A,KIF2C,KIF4A,MRPL36,NSUN2, ORC1,PAPD7,PLK1,SKP2,TARS,TPX2,TRIP13 | AHSA1,HYPK,C1QBP,CCT5,CCT6A,CCT7,CDC123, CIAPIN1,DCTN2,DNAJC7,EIF5A,EIF5AL1,GARS,HSPA8, MRPL24,NME1,RAN,SEC13,TARS,TXNL4A,YARS |
BRIX1,CMSS1,CCNB1,CCT2,CCT5,CIRH1A,FAM173B, FASTKD3,MED10,MRPL36,MRPS30,NDUFS6,NSUN2,NUP37, PAIP1,PDCD6,RAD1,SUB1,TARS,TRIP13,WDR70 | CCT5,CCT6A,CCT8,CDC6,DNAJC9,EIF4A1,EIF4A3, GGCT,GINS2,HNRNPF,LRRC59,PCNA,POLE2,PSME3, RANBP1,RPN1,TRA2B,TXNL4A,UBE2T,UMPS,VRK1 |
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 CCT5 |
There's no related Drug. |
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Cross referenced IDs for CCT5 |
* 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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