|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for ST6GALNAC4 |
Basic gene info. | Gene symbol | ST6GALNAC4 |
Gene name | ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 | |
Synonyms | IV|SIAT3-C|SIAT3C|SIAT7-D|SIAT7D|ST6GALNACIV|ST6GalNAc | |
Cytomap | UCSC genome browser: 9q34 | |
Genomic location | chr9 :130670164-130679305 | |
Type of gene | protein-coding | |
RefGenes | NM_175039.3, NM_175040.3,NM_014403.3, | |
Ensembl id | ENSG00000136840 | |
Description | NeuAc-alpha-2,3-Gal-beta-1,3-GalNAc-alpha-2, 6-sialyltransferase alpha2,6-sialyltransferaseNeuAc-alpha-2,3-Gal-beta-1,3-GalNAc-alpha-2,6-sialyltransferase IVST6 neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminidealpha-2,6-sialyltransferase 4ST6 | |
Modification date | 20141207 | |
dbXrefs | MIM : 606378 | |
HGNC : HGNC | ||
Ensembl : ENSG00000136840 | ||
HPRD : 05902 | ||
Vega : OTTHUMG00000020724 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ST6GALNAC4 | |
BioGPS: 27090 | ||
Gene Expression Atlas: ENSG00000136840 | ||
The Human Protein Atlas: ENSG00000136840 | ||
Pathway | NCI Pathway Interaction Database: ST6GALNAC4 | |
KEGG: ST6GALNAC4 | ||
REACTOME: ST6GALNAC4 | ||
ConsensusPathDB | ||
Pathway Commons: ST6GALNAC4 | ||
Metabolism | MetaCyc: ST6GALNAC4 | |
HUMANCyc: ST6GALNAC4 | ||
Regulation | Ensembl's Regulation: ENSG00000136840 | |
miRBase: chr9 :130,670,164-130,679,305 | ||
TargetScan: NM_175039 | ||
cisRED: ENSG00000136840 | ||
Context | iHOP: ST6GALNAC4 | |
cancer metabolism search in PubMed: ST6GALNAC4 | ||
UCL Cancer Institute: ST6GALNAC4 | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for ST6GALNAC4(metabolism pathway, cancer, disease, phenome) |
![]() | |
Cancer | CGAP: ST6GALNAC4 |
Familial Cancer Database: ST6GALNAC4 |
* 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/ |
![]() | |
REACTOME_METABOLISM_OF_PROTEINS |
Mutations for ST6GALNAC4 |
* 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. |
![]() |
There's no structural variation information in COSMIC data for this gene. |
![]() |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows ST6GALNAC4 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 |
![]() |
Top |
![]() |
There's no copy number variation information in COSMIC data for this gene. |
Top |
![]() |
|
![]() |
Top |
![]() |
Stat. for Non-Synonymous SNVs (# total SNVs=20) | (# total SNVs=9) |
![]() | ![]() |
(# total SNVs=0) | (# total SNVs=0) |
Top |
![]() |
* 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 |
chr9:130674711-130674711 | p.M149I | 3 |
chr9:130677116-130677116 | p.R6L | 2 |
chr9:130674658-130674658 | p.R167H | 2 |
chr9:130674558-130674558 | p.T200T | 2 |
chr9:130674812-130674812 | p.G116S | 2 |
chr9:130674610-130674610 | p.T183I | 1 |
chr9:130674833-130674833 | p.V109M | 1 |
chr9:130672244-130672244 | p.S235S | 1 |
chr9:130674628-130674628 | p.P177H | 1 |
chr9:130674840-130674840 | p.A106A | 1 |
Top |
![]() |
|
![]() |
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 | 2 | 4 | 1 |   |   |   |   |   |   | 1 | 1 |   |   |   | 3 |   | 1 | 4 |
# mutation | 1 | 1 | 2 | 4 | 1 |   |   |   |   |   |   | 1 | 1 |   |   |   | 3 |   | 1 | 5 |
nonsynonymous SNV | 1 | 1 |   | 4 |   |   |   |   |   |   |   | 1 | 1 |   |   |   | 1 |   |   | 4 |
synonymous SNV |   |   | 2 |   | 1 |   |   |   |   |   |   |   |   |   |   |   | 2 |   | 1 | 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]) |
Top |
![]() |
* 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 |
chr9:130674558 | p.T116T,ST6GALNAC4 | 2 |
chr9:130674736 | p.L127L,ST6GALNAC4 | 1 |
chr9:130672244 | p.R120W,ST6GALNAC4 | 1 |
chr9:130674833 | p.K118N,ST6GALNAC4 | 1 |
chr9:130672250 | p.C108C,ST6GALNAC4 | 1 |
chr9:130674945 | p.R83H,ST6GALNAC4 | 1 |
chr9:130672316 | p.T81T,ST6GALNAC4 | 1 |
chr9:130676970 | p.H72P,ST6GALNAC4 | 1 |
chr9:130674548 | p.Q57R,ST6GALNAC4 | 1 |
chr9:130676980 | p.P213T,ST6GALNAC4 | 1 |
![]() |
![]() |
* 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] |
Top |
Gene Expression for ST6GALNAC4 |
![]() |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
![]() |
![]() |
* 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)) |
![]() |
Top |
![]() |
* This plots show the correlation between CNV and gene expression. |
![]() | |
![]() |
Top |
Gene-Gene Network Information |
![]() |
* 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 |
![]() | |
ABCA2,ABHD12,AK1,BSCL2,C9orf172,DPP7,FAM195A, FBXW5,FPGS,GALE,HSH2D,LMAN2,LRPAP1,NPDC1, RNASEK,SPR,SSR4,ST6GALNAC4,ST6GALNAC6,TNFSF13,TOR2A | C19orf70,CLTB,EPN1,FAM89B,FAM96B,HOMER3,IFI27L2, NAA38,MAD2L2,MAP2K2,NDUFA11,NOSIP,ORAI1,PPP1R14B, PSMB10,ROMO1,SSBP4,ST6GALNAC4,TCEB2,TRAPPC5,YIF1A |
![]() | |
ADAM15,AK1,MFSD12,SLC35F6,CTNNBIP1,DPM2,FKBP11, GUK1,MAP3K6,METRN,PLLP,PPP2R4,PTRH1,PUSL1, RGS14,ST6GALNAC4,STUB1,STXBP1,SURF4,TMPRSS3,TSTA3 | ARF4,PRAC2,CDYL,CREB3L1,FAM3D,GNE,HOXB13, IGSF5,MFSD4,MLPH,NRAP,PRAC1,PVRL4,QSOX1, SPDEF,ST3GAL4,ST6GALNAC4,ST6GALNAC6,TGM3,TMCO3,TTC39A |
![]() |
* 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 |
Top |
![]() |
Top |
Pharmacological Information for ST6GALNAC4 |
There's no related Drug. |
Top |
Cross referenced IDs for ST6GALNAC4 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |