TissGeneSummary for RGAG1 |
Gene summary |
Basic gene information | Gene symbol | RGAG1 |
Gene name | retrotransposon gag domain containing 1 | |
Synonyms | MAR9|MART9 | |
Cytomap | UCSC genome browser: Xq23 | |
Type of gene | protein-coding | |
RefGenes | NM_020769.2, | |
Description | retrotransposon gag domain-containing protein 1tumor antigen BJ-HCC-23tumor antigen BJHCC23 | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000243978 | ||
HPRD : 06600 | ||
Vega : OTTHUMG00000022196 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RGAG1 | |
BioGPS: 57529 | ||
Pathway | NCI Pathway Interaction Database: RGAG1 | |
KEGG: RGAG1 | ||
REACTOME: RGAG1 | ||
Pathway Commons: RGAG1 | ||
Context | iHOP: RGAG1 | |
ligand binding site mutation search in PubMed: RGAG1 | ||
UCL Cancer Institute: RGAG1 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Testis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCT | |
Reference showing the relevant tissue of RGAG1 | ||
Description by TissGene annotations | Cancer gene |
* 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 RGAG1 |
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 |
KICH | 1.213153166 | -0.222790834 | 1.435944 | 0.0052 | 0.00988 |
LIHC | 1.514437166 | 0.424247166 | 1.09019 | 0.00404 | 0.009495069 |
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TissGene-miRNA for RGAG1 |
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 |
LUAD | hsa-miR-200a-3p | MIMAT0000682 | 0.039 | -0.27 | 60 |
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TissGeneMut for RGAG1 |
TissGeneSNV for RGAG1 |
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.E926* | UCEC | 1 |
p.E1206D | STAD | 1 |
p.G293R | LUAD | 1 |
p.A1131V | UCEC | 1 |
p.L1152S | LIHC | 1 |
p.G1338A | LUAD | 1 |
p.T239S | LUSC | 1 |
p.E1299K | SKCM | 1 |
p.A1187T | UCEC | 1 |
p.P77L | LUAD | 1 |
p.D301Y | LUAD | 1 |
p.P297S | SKCM | 1 |
p.D303Y | UCEC | 1 |
p.G829E | SKCM | 1 |
p.E1165K | LUAD | 1 |
p.S602Y | BLCA | 1 |
p.P102T | BRCA | 1 |
p.S1217F | PRAD | 1 |
p.M697R | KIRP | 1 |
p.M580T | BRCA | 1 |
p.H1371Y | LUAD | 1 |
p.R1159W | SKCM | 1 |
p.M469T | LIHC | 1 |
p.T522K | LUAD | 1 |
p.E1368X | LGG | 1 |
p.D264N | SKCM | 1 |
p.Q745X | PAAD | 1 |
p.S347F | SKCM | 1 |
p.C1162R | KIRP | 1 |
p.R1221K | READ | 1 |
p.G843* | HNSC | 1 |
p.L196I | SKCM | 1 |
p.R1046K | READ | 1 |
p.L1073I | LUAD | 1 |
p.T458K | LUAD | 1 |
p.P355T | STAD | 1 |
p.M437T | STAD | 1 |
p.M876I | SKCM | 1 |
p.P365L | SKCM | 1 |
p.A345S | READ | 1 |
p.S689C | BLCA | 1 |
p.S191P | LGG | 1 |
p.S1191Y | BRCA | 1 |
p.D96N | SKCM | 1 |
p.D342Y | READ | 1 |
p.E1167X | READ | 1 |
p.S868Y | LUAD | 1 |
p.G1375E | SKCM | 1 |
p.G1142E | SKCM | 1 |
p.Q940K | ACC | 1 |
p.G730E | SKCM | 1 |
p.A470D | LUAD | 1 |
p.S587L | LUAD | 1 |
p.E1314K | LUAD | 1 |
p.A519S | STAD | 1 |
p.D1101N | SKCM | 1 |
p.M823I | HNSC | 1 |
p.A906V | UCEC | 1 |
p.T596I | UCEC | 1 |
p.G1080V | COAD | 1 |
p.F1179V | STAD | 1 |
p.L258M | LUSC | 1 |
p.S748T | STAD | 1 |
p.E1368* | LGG | 1 |
p.A345T | COAD | 1 |
p.G59X | TGCT | 1 |
p.M510I | COAD | 1 |
p.E163D | UCEC | 1 |
p.M118L | LUSC | 1 |
p.A249P | LUSC | 1 |
p.V403L | ACC | 1 |
p.S1121L | CESC | 1 |
p.P900Q | LUSC | 1 |
p.S734L | SKCM | 1 |
p.T352M | GBM | 1 |
p.K838N | UCEC | 1 |
p.A678V | LIHC | 1 |
p.M497L | LGG | 1 |
p.S314F | SKCM | 1 |
p.A1047S | KICH | 1 |
p.G417R | TGCT | 1 |
p.A400S | LUAD | 1 |
p.M14T | COAD | 1 |
p.T769K | UCEC | 1 |
p.P892T | COAD | 1 |
p.A662S | PAAD | 1 |
p.E1198D | COAD | 1 |
p.S1028Y | READ | 1 |
p.M273V | BRCA | 1 |
p.M1082L | COAD | 1 |
p.P978L | CESC | 1 |
p.G214R | SKCM | 1 |
p.P892Q | CESC | 1 |
p.A86P | LGG | 1 |
p.A27S | COAD | 1 |
p.S950P | STAD | 1 |
p.P900Q | OV | 1 |
p.A932D | CESC | 1 |
p.R9Q | READ | 1 |
p.L539V | CESC | 1 |
p.P69A | LGG | 1 |
p.G479C | UCS | 1 |
p.S321C | LUSC | 1 |
p.K568T | UCEC | 1 |
p.G1142V | LUSC | 1 |
p.A1237V | COAD | 1 |
p.S724N | COAD | 1 |
p.S598* | LUAD | 1 |
p.A741S | LUAD | 1 |
p.D776Y | STAD | 1 |
p.P1139S | UCEC | 1 |
p.S278P | LUAD | 1 |
p.H45R | UCEC | 1 |
p.G293E | LUSC | 1 |
p.Y1226H | UCEC | 1 |
p.Q745* | PAAD | 1 |
p.P552S | UCEC | 1 |
p.D57G | BRCA | 1 |
p.L324P | UCS | 1 |
p.P119S | SKCM | 1 |
p.T571A | LIHC | 1 |
p.T1007A | STAD | 1 |
p.S243P | KIRP | 1 |
p.A1114V | STAD | 1 |
p.G857E | LGG | 1 |
p.G305* | LUSC | 1 |
p.G948R | SKCM | 1 |
p.R811I | UCEC | 1 |
p.E318K | BRCA | 1 |
p.S1024T | LUSC | 1 |
p.G1090E | LUAD | 1 |
p.S256P | BLCA | 1 |
p.Q700L | SARC | 1 |
p.P1095S | LUSC | 1 |
p.A1015T | LUAD | 1 |
p.P355H | OV | 1 |
p.S589F | LUAD | 1 |
p.G305V | BRCA | 1 |
p.E1167K | LGG | 1 |
p.P848S | LGG | 1 |
p.S256Y | COAD | 1 |
p.G1142R | SKCM | 1 |
p.S1039L | SKCM | 1 |
p.M697T | UCEC | 1 |
p.S1022F | CESC | 1 |
p.D38H | LUAD | 1 |
p.H6R | LIHC | 1 |
p.A675V | COAD | 1 |
p.M105I | HNSC | 1 |
p.G149V | SKCM | 1 |
p.P848S | UCEC | 1 |
p.K1388N | LUAD | 1 |
p.E1167D | COAD | 1 |
p.M143T | HNSC | 1 |
p.S314F | KIRP | 1 |
p.S191P | STAD | 1 |
p.P323L | SKCM | 1 |
p.S669L | BLCA | 1 |
p.D673Y | UCEC | 1 |
p.M845I | SKCM | 1 |
p.M830I | ACC | 1 |
p.V327L | LUSC | 1 |
p.V137I | GBM | 1 |
p.T596K | LUAD | 1 |
p.S1108C | BLCA | 1 |
p.L1229I | UCEC | 1 |
p.E1156K | SKCM | 1 |
p.Q1344* | LUAD | 1 |
p.P1041R | LUAD | 1 |
p.T478I | LUSC | 1 |
p.G495E | READ | 1 |
p.S161F | LUSC | 1 |
p.R1271L | LUAD | 1 |
p.N1320I | UCEC | 1 |
p.L91I | LUAD | 1 |
p.Q1351* | SKCM | 1 |
p.P224L | BRCA | 1 |
p.G435R | STAD | 1 |
p.M32T | UCEC | 1 |
p.A582T | LGG | 1 |
p.V1010M | READ | 1 |
p.K1315M | LUAD | 1 |
p.D1372N | SKCM | 1 |
p.P1043Q | LUAD | 1 |
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TissGeneCNV for RGAG1 |
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 RGAG1 |
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 | FusionScan | BRCA | TCGA-A8-A085-01A | COL4A5-RGAG1 | CDS-5'UTR | chrX:107683436 | chrX:109688380 |
Chimerdb3.0 | FusionScan | BRCA | TCGA-A8-A085-01A | COL4A5-RGAG1 | CDS-5'UTR | chrX:107683436 | chrX:109693794 |
Chimerdb3.0 | TopHat-Fusion | BRCA | TCGA-A8-A085-01A | COL4A5-RGAG1 | CDS-5'UTR | chrX:107683435 | chrX:109688380 |
Chimerdb3.0 | TopHat-Fusion | BRCA | TCGA-A8-A085-01A | COL4A5-RGAG1 | CDS-5'UTR | chrX:107683435 | chrX:109693794 |
TCGAfusionPortal | PRADA | BRCA | TCGA-A8-A085-01A | COL4A5-RGAG1 | CDS-5UTR | ChrX:107683436 | ChrX:109688381 |
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TissGeneNet for RGAG1 |
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 RGAG1 |
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 RGAG1 |
TissGeneDrug for RGAG1 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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TissGeneDisease for RGAG1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |