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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for NT5C3A |
Basic gene info. | Gene symbol | NT5C3A |
Gene name | 5'-nucleotidase, cytosolic IIIA | |
Synonyms | NT5C3|P5'N-1|P5N-1|PN-I|POMP|PSN1|UMPH|UMPH1|cN-III|hUMP1|p36 | |
Cytomap | UCSC genome browser: 7p14.3 | |
Genomic location | :- | |
Type of gene | protein-coding | |
RefGenes | NM_001002009.2, NM_001002010.2,NM_001166118.2,NM_016489.12, | |
Ensembl id | N/A | |
Description | 5'-nucleotidase, cytosolic IIIcytosolic 5'-nucleotidase 3cytosolic 5'-nucleotidase 3Alupinpyrimidine 5'-nucleotidase 1uridine 5'-monophosphate hydrolase 1 | |
Modification date | 20141207 | |
dbXrefs | MIM : 606224 | |
HGNC : HGNC | ||
Ensembl : ENSG00000122643 | ||
HPRD : 05871 | ||
Vega : OTTHUMG00000152983 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_NT5C3A | |
BioGPS: 51251 | ||
Gene Expression Atlas: N/A | ||
The Human Protein Atlas: N/A | ||
Pathway | NCI Pathway Interaction Database: NT5C3A | |
KEGG: NT5C3A | ||
REACTOME: NT5C3A | ||
ConsensusPathDB | ||
Pathway Commons: NT5C3A | ||
Metabolism | MetaCyc: NT5C3A | |
HUMANCyc: NT5C3A | ||
Regulation | Ensembl's Regulation: N/A | |
miRBase: :- | ||
TargetScan: NM_001002009 | ||
cisRED: N/A | ||
Context | iHOP: NT5C3A | |
cancer metabolism search in PubMed: NT5C3A | ||
UCL Cancer Institute: NT5C3A | ||
Assigned class in ccmGDB | B - This gene belongs to cancer gene. |
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Phenotypic Information for NT5C3A(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: NT5C3A |
Familial Cancer Database: NT5C3A |
* This gene is included in those cancer gene databases. |
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 | |
Nat Rev Drug Discovery, 2013, 12: 829, doi: 10.1038/nrd4145 |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: NT5C3A |
MedGen: NT5C3A (Human Medical Genetics with Condition) | |
ClinVar: NT5C3A | |
Phenotype | MGI: NT5C3A (International Mouse Phenotyping Consortium) |
PhenomicDB: NT5C3A |
Mutations for NT5C3A |
* 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 NT5C3A 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=0) | (# 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 |
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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 | 3 | 1 |   | 7 |   |   | 3 |   | 2 |   |   | 6 | 2 | 1 |   |   | 3 | 3 | 1 | 7 |
# mutation | 3 | 1 |   | 7 |   |   | 3 |   | 2 |   |   | 6 | 2 | 1 |   |   | 4 | 3 | 1 | 7 |
nonsynonymous SNV | 2 | 1 |   | 5 |   |   | 2 |   | 1 |   |   | 2 | 2 | 1 |   |   | 2 | 1 | 1 | 6 |
synonymous SNV | 1 |   |   | 2 |   |   | 1 |   | 1 |   |   | 4 |   |   |   |   | 2 | 2 |   | 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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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 |
chr7:33057183 | p.L192L,NT5C3A | 3 |
chr7:33055308 | p.E211Q,NT5C3A | 2 |
chr7:33057195 | p.P198P,NT5C3A | 2 |
chr7:33057128 | p.F188L,NT5C3A | 2 |
chr7:33057165 | p.L295L,NT5C3A | 2 |
chr7:33054440 | p.A164S,NT5C3A | 1 |
chr7:33057180 | p.D277E,NT5C3A | 1 |
chr7:33061678 | p.E144Q,NT5C3A | 1 |
chr7:33063669 | p.F263L,NT5C3A | 1 |
chr7:33055360 | p.A133T,NT5C3A | 1 |
Other DBs for Point Mutations |
Copy Number for NT5C3A 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 NT5C3A |
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 |
CBX3,CMPK2,CYCS,DDX58,HESX1,IFI44,IFI44L, IFIH1,IFIT1,IFIT2,IFIT3,IFNB1,MX2,NT5C3A, OAS2,OASL,PARP12,RSAD2,SAMD9L,USP18,XAF1 | BRMS1L,SPRYD7,FAM210A,COX11,E2F6,EIF3J,HSF2, MMADHC,MOB4,NDUFA5,NT5C3A,PPP1CB,PPP1R2,PRKRA, RAB12,RFESD,RWDD4,UBE2B,VBP1,VTA1,YAF2 |
ARL4A,C1GALT1,MALSU1,CBX3,CCT6A,CYCS,GARS, GGCT,GLRX2,HUS1,LSM5,MRPL32,NT5C3A,PRSS3, PSMA2,RAC1,RALA,RP9P,S100A10,SEC61G,TAX1BP1 | ARPC2,CAP1,CASP10,CASP3,CASP7,CASP8,CCDC68, CEACAM1,CEACAM6,CLIC5,HPSE,KRT20,MAPK6,MYD88, NT5C3A,OSTF1,PLAC8,RALB,RNF19B,TDRD7,TPM3 |
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 NT5C3A |
There's no related Drug. |
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Cross referenced IDs for NT5C3A |
* 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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