TissGeneSummary for SLC5A6 |
Gene summary |
Basic gene information | Gene symbol | SLC5A6 |
Gene name | solute carrier family 5 (sodium/multivitamin and iodide cotransporter), member 6 | |
Synonyms | SMVT | |
Cytomap | UCSC genome browser: 2p23 | |
Type of gene | protein-coding | |
RefGenes | NM_021095.2, NR_028323.1, | |
Description | Na(+)-dependent multivitamin transporterNa+-dependent multivitamin transportersodium-dependent multivitamin transportersolute carrier family 5 (sodium-dependent vitamin transporter), member 6solute carrier family 5 member 6 | |
Modification date | 20141211 | |
dbXrefs | MIM : 604024 | |
HGNC : HGNC | ||
Ensembl : ENSG00000138074 | ||
HPRD : 04934 | ||
Vega : OTTHUMG00000097075 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SLC5A6 | |
BioGPS: 8884 | ||
Pathway | NCI Pathway Interaction Database: SLC5A6 | |
KEGG: SLC5A6 | ||
REACTOME: SLC5A6 | ||
Pathway Commons: SLC5A6 | ||
Context | iHOP: SLC5A6 | |
ligand binding site mutation search in PubMed: SLC5A6 | ||
UCL Cancer Institute: SLC5A6 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | LiverStomach | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | LIHCSTAD | |
Reference showing the relevant tissue of SLC5A6 | ||
Description by TissGene annotations | Cancer gene TissgsLTS Fused withOncogene |
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID |
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TissGeneExp for SLC5A6 |
Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01) |
Gene expressions across normal tissues of GTEx data (GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct) - Here, we shows the matched tissue types only among our 28 cancer types. |
Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
COAD | 2.777172538 | 1.272141768 | 1.505030769 | 2.09E-12 | 4.87E-11 |
LUAD | 1.287642166 | 0.158540442 | 1.129101724 | 8.99E-26 | 4.20E-24 |
STAD | 1.956489365 | 0.52051124 | 1.435978125 | 4.68E-09 | 2.77E-07 |
BLCA | 2.228300878 | 0.516164036 | 1.712136842 | 2.40E-08 | 1.84E-06 |
LUSC | 1.964877967 | 0.284472085 | 1.680405882 | 1.29E-20 | 1.64E-19 |
ESCA | 2.106541069 | 0.626668342 | 1.479872727 | 0.000187 | 0.005010699 |
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TissGene-miRNA for SLC5A6 |
Significantly anti-correlated miRNAs of TissGene across 28 cancer types (Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016) (TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21) (TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16) (Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25)) |
Cancer type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
UVM | hsa-let-7b-5p | MIMAT0000063 | 0.01 | -0.29 | 80 |
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TissGeneMut for SLC5A6 |
TissGeneSNV for SLC5A6 |
nsSNV counts per each loci. Different colors of circles represent different cancer types. Circle size denotes number of samples. (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) * Click on the image to enlarge it in a new window. |
Somatic nucleotide variants of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of mutated samples) The numbers in parentheses are numbers of samples with mutation (nsSNVs). (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.V83M | COAD | 1 |
p.R123H | HNSC | 1 |
p.P574T | THYM | 1 |
p.A198V | COAD | 1 |
p.G405D | GBM | 1 |
p.E389K | LUAD | 1 |
p.G239D | STAD | 1 |
p.V341L | LUAD | 1 |
p.R53W | PRAD | 1 |
p.S15W | LUAD | 1 |
p.R136X | STAD | 1 |
p.R142* | CESC | 1 |
p.R136Q | COAD | 1 |
p.I475T | STAD | 1 |
p.M397V | STAD | 1 |
p.S12F | SKCM | 1 |
p.F24L | UCS | 1 |
p.V160E | KIRC | 1 |
p.V501I | STAD | 1 |
p.W51* | CESC | 1 |
p.G362S | UCEC | 1 |
p.R553* | UCEC | 1 |
p.G405V | BLCA | 1 |
p.D334Y | STAD | 1 |
p.Y29C | COAD | 1 |
p.S236P | STAD | 1 |
p.T500I | UCEC | 1 |
p.S39C | BLCA | 1 |
p.D592N | STAD | 1 |
p.T127S | LUAD | 1 |
p.Y530* | STAD | 1 |
p.S8* | BLCA | 1 |
p.L44R | BRCA | 1 |
p.F522L | CESC | 1 |
p.A317V | KIRP | 1 |
p.R384L | LUSC | 1 |
p.R553X | READ | 1 |
p.Y530X | STAD | 1 |
p.P453S | SKCM | 1 |
p.P564Q | ESCA | 1 |
p.P454H | UCEC | 1 |
p.G221R | SKCM | 1 |
p.Q335* | SKCM | 1 |
p.P574S | SKCM | 1 |
p.P299S | SKCM | 1 |
p.A317E | ESCA | 1 |
p.S25F | LUSC | 1 |
p.V234L | BRCA | 1 |
p.V217D | ACC | 1 |
p.Y295C | KIRP | 1 |
p.I219V | SKCM | 1 |
p.K568R | THYM | 1 |
p.R394P | OV | 1 |
p.R136L | KIRC | 1 |
p.R136* | STAD | 1 |
p.V120I | COAD | 1 |
p.R384Q | UCEC | 1 |
p.Q335X | SKCM | 1 |
p.S293F | SKCM | 1 |
p.Q330E | BLCA | 1 |
p.E131G | STAD | 1 |
p.V120I | STAD | 1 |
p.P567L | OV | 1 |
p.L270F | LUAD | 1 |
p.L411V | BRCA | 1 |
p.A62V | STAD | 1 |
p.D592N | COAD | 1 |
p.R64H | STAD | 1 |
p.P349S | STAD | 1 |
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TissGeneCNV for SLC5A6 |
Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples) (TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16) |
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TissGeneFusions for SLC5A6 |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
Chimerdb3.0 | ChiTaRs | NA | BQ022479 | RAB11B-SLC5A6 | chr19:8469213 | chr2:27423959 |
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TissGeneNet for SLC5A6 |
Co-expressed gene networks based on protein-protein interaction data (CePIN) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (PINA2 ppi data) |
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TissGeneProg for SLC5A6 |
Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image to enlarge it in a new window. |
Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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TissGeneClin for SLC5A6 |
TissGeneDrug for SLC5A6 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
DB00121 | Biotin | Small molecule | Approved|Nutraceutical | |
DB00166 | Lipoic Acid | Small molecule | Approved|Nutraceutical |
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TissGeneDisease for SLC5A6 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0006142 | Malignant neoplasm of breast | 1 | BeFree |
umls:C0011053 | Deafness | 1 | GAD |
umls:C0018772 | Hearing Loss, Partial | 1 | GAD |
umls:C0079748 | Precursor cell lymphoblastic lymphoma | 1 | BeFree |
umls:C0376358 | Malignant neoplasm of prostate | 1 | BeFree |
umls:C0600139 | Prostate carcinoma | 1 | BeFree |
umls:C0678222 | Breast Carcinoma | 1 | BeFree |
umls:C1384666 | hearing impairment | 1 | GAD |
umls:C3887873 | Hearing Loss | 1 | GAD |