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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for CHST5 |
Basic gene info. | Gene symbol | CHST5 |
Gene name | carbohydrate (N-acetylglucosamine 6-O) sulfotransferase 5 | |
Synonyms | I-GlcNAc-6-ST|I-GlcNAc6ST|glcNAc6ST-3|gn6st-3|hIGn6ST | |
Cytomap | UCSC genome browser: 16q22.3 | |
Genomic location | chr16 :75562427-75569068 | |
Type of gene | protein-coding | |
RefGenes | NM_024533.4, NM_012126.1, | |
Ensembl id | ENSG00000135702 | |
Description | GST4-alphaN-acetylglucosamine 6-O-sulfotransferase 3carbohydrate sulfotransferase 5galactose/N-acetylglucosamine/N-acetylglucosamine 6-O-sulfotransferase 4-alphaintestinal GlcNAc-6-sulfotransferase | |
Modification date | 20141207 | |
dbXrefs | MIM : 604817 | |
HGNC : HGNC | ||
Ensembl : ENSG00000135702 | ||
HPRD : 07059 | ||
Vega : OTTHUMG00000137610 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_CHST5 | |
BioGPS: 23563 | ||
Gene Expression Atlas: ENSG00000135702 | ||
The Human Protein Atlas: ENSG00000135702 | ||
Pathway | NCI Pathway Interaction Database: CHST5 | |
KEGG: CHST5 | ||
REACTOME: CHST5 | ||
ConsensusPathDB | ||
Pathway Commons: CHST5 | ||
Metabolism | MetaCyc: CHST5 | |
HUMANCyc: CHST5 | ||
Regulation | Ensembl's Regulation: ENSG00000135702 | |
miRBase: chr16 :75,562,427-75,569,068 | ||
TargetScan: NM_024533 | ||
cisRED: ENSG00000135702 | ||
Context | iHOP: CHST5 | |
cancer metabolism search in PubMed: CHST5 | ||
UCL Cancer Institute: CHST5 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for CHST5(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: CHST5 |
Familial Cancer Database: CHST5 |
* 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/ |
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REACTOME_METABOLISM_OF_CARBOHYDRATES |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: CHST5 |
MedGen: CHST5 (Human Medical Genetics with Condition) | |
ClinVar: CHST5 | |
Phenotype | MGI: CHST5 (International Mouse Phenotyping Consortium) |
PhenomicDB: CHST5 |
Mutations for CHST5 |
* 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 CHST5 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 |
AK075034 | ABHD14B | 3 | 990 | 3 | 52003200 | 52008065 | CHST5 | 988 | 1673 | 16 | 75572202 | 75572887 |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=47) | (# total SNVs=20) |
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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 |
chr16:75563330-75563330 | p.T318M | 5 |
chr16:75563746-75563746 | p.P179P | 3 |
chr16:75564025-75564025 | p.P86P | 3 |
chr16:75563490-75563490 | p.R265C | 2 |
chr16:75563963-75563963 | p.A107V | 2 |
chr16:75563999-75563999 | p.A95V | 2 |
chr16:75563927-75563927 | p.R119H | 2 |
chr16:75563329-75563329 | p.T318T | 2 |
chr16:75563756-75563756 | p.T176M | 2 |
chr16:75563653-75563653 | p.L210L | 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 |   | 1 | 1 | 6 | 5 |   | 2 |   | 1 |   |   | 8 | 6 | 1 |   |   | 10 | 9 | 1 | 8 |
# mutation |   | 1 | 1 | 6 | 5 |   | 3 |   | 1 |   |   | 8 | 6 | 1 |   |   | 9 | 11 | 1 | 8 |
nonsynonymous SNV |   | 1 | 1 | 6 | 1 |   | 2 |   |   |   |   | 7 | 5 |   |   |   | 6 | 8 | 1 | 7 |
synonymous SNV |   |   |   |   | 4 |   | 1 |   | 1 |   |   | 1 | 1 | 1 |   |   | 3 | 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 |
chr16:75563756 | p.T176M | 2 |
chr16:75563963 | p.R265C | 2 |
chr16:75563644 | p.P213P | 2 |
chr16:75563490 | p.A107V | 2 |
chr16:75563946 | p.G79S | 1 |
chr16:75563388 | p.A372T | 1 |
chr16:75564134 | p.G163D | 1 |
chr16:75563598 | p.G74V | 1 |
chr16:75563169 | p.C371C | 1 |
chr16:75563417 | p.W254S | 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 CHST5 |
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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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ACD,AGAP3,ENKD1,SPATA33,H1FX-AS1,SAPCD1,CDK10, CENPT,CHST5,GLI4,KIFC2,PRR22,PRR7,QTRT1, RPL13,SLMO1,SPG7,TAF1C,TMEM231,TRMT1,ZNF579 | ANO9,C1orf159,CCDC24,CHST5,DGCR8,DTX3,EBF4, DENND6B,IFT27,PRR22,PRRT1,RCE1,RHBDF1,RTKN, SAMD10,SERINC2,SH3GLB2,SLC25A29,TMEM198,TSEN54,ZNF574 |
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ATP2A3,B3GALT5,BCAS1,CAPN9,CHST5,CREB3L1,FABP2, FER1L6,KLF4,KLK1,LRRIQ4,MARVELD3,MUC2,REG4, ST6GALNAC1,TMEM61,TMEM92,TPSG1,TSPAN1,VWA3B,ZBTB7C | B3GNT7,PRAC2,CAPN13,CDHR1,CHST5,FOXA2,GMCL1, GPRIN2,HOXB13,LOC284578,MFI2,MFSD4,MMP28,MNX1, PP14571,PRAC1,QPRT,SIDT1,SPON1,ST6GALNAC6,TMCO3 |
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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 CHST5 |
There's no related Drug. |
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Cross referenced IDs for CHST5 |
* 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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