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RNA category is based on mRNA expression levels in the analyzed samples (RNA assay description). The categories include: tissue/cell line enriched, group enriched, tissue/cell line enhanced, expressed in all, mixed and not detected. RNA category is calculated separately for The Cancer Genome Atlas (TCGA) data from cancer tissues and internally generated Human Protein Atlas (HPA) data from normal tissues and cell lines.
TCGA (cancer tissue):
Expressed in all
HPA (cell line):
Expressed in all
HPA (normal tissue):
Expressed in all
Protein evidencei
Protein evidence scores are generated from several independent sources and are classified as evidence at i) protein level, ii) transcript level, iii) no evidence, or iv) not available.
Evidence at protein level
Protein expression normal tissuei
A summary of the overall protein expression pattern across the analyzed normal tissues. The summary is based on knowledge-based annotation.
"Estimation of protein expression could not be performed. View primary data." is shown for genes analyzed with a knowledge-based approach where available RNA-seq and gene/protein characterization data has been evaluated as not sufficient in combination with immunohistochemistry data to yield a reliable estimation of the protein expression profile.
Cytoplasmic expression in most tissues, highly abundant in epithelial cells.
IMMUNOHISTOCHEMISTRY DATA RELIABILITY
Data reliability descriptioni
Standardized explanatory sentences with additional information required for full understanding of the knowledge-based expression profile.
Caution, targets protein from more than one gene. External characterization data supports antibody staining.
Reliability score - normal tissuesi
Reliability score (score description), divided into Enhanced, Supported, Approved, or Uncertain, is evaluated in normal tissues and based on consistency between antibody staining pattern, available RNA-Seq and gene/protein characterization data, as well as similarity between independent antibodies targeting the same protein.
Kaplan-Meier plots for all cancers where high expression of this gene has significant (p<0.001) association with patient survival are shown in this summary. Whether the prognosis is favourable or unfavourable is indicated in brackets. Each Kaplan-Meier plot is clickable and redirects to a detailed page that includes individual expression and survival data for patients with the selected cancer.
RNA expression overview shows RNA-seq data from The Cancer Genome Atlas (TCGA).
TCGA dataseti
RNA-seq data in 17 cancer types are reported as median FPKM (number Fragments Per Kilobase of exon per Million reads), generated by the The Cancer Genome Atlas (TCGA). RNA cancer tissue category is calculated based on mRNA expression levels across all 17 cancer tissues and include: cancer tissue enriched, cancer group enriched, cancer tissue enhanced, expressed in all, mixed and not detected. To access cancer specific RNA and prognostic data, click on the cancer name. The cancer types are color-coded according to which type of normal organ the cancer originates from.
Antibody staining in 20 different cancers is summarized by a selection of four standard cancer tissue samples representative of the overall staining pattern. From left: colorectal cancer, breast cancer, prostate cancer and lung cancer. An additional fifth image can be added as a complement. The assay and annotation is described here. Note that samples used for immunohistochemistry by the Human Protein Atlas do not correspond to samples in the TCGA dataset.
For each cancer, color-coded bars indicate the percentage of patients (maximum 12 patients) with high and medium protein expression level. The cancer types are color-coded according to which type of normal organ the cancer originates from. Low or not detected protein expression results in a white bar. Mouse-over function shows details about expression level and normal tissue of origin. The images and annotations can be accessed by clicking on the cancer name or protein expression bar. If more than one antibody is analyzed, the tabs at the top of the staining summary section can be used to toggle between the different antibodies.
Several cases of urothelial cancers, squamous and basal cell carcinomas along with a few cases of non-Hodgkins lymphomas and ovarian cancers showed moderate to strong cytoplasmic positivity. Remaining cancers were negative.
Several colorectal, urothelial, renal, gastric, pancreatic and liver cancers along with a few malignant melanomas, lung and skin cancers displayed moderate cytoplasmic positivity. Remaining malignant tissues were generally negative.
GENE INFORMATIONi
Gene information from Ensembl and Entrez, as well as links to available gene identifiers are displayed here. Information was retrieved from Ensembl if not indicated otherwise.
Gene name
RAC1 (HGNC Symbol)
Synonyms
p21-Rac1, Rac-1, TC-25
Description
Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1) (HGNC Symbol)
Entrez gene summary
The protein encoded by this gene is a GTPase which belongs to the RAS superfamily of small GTP-binding proteins. Members of this superfamily appear to regulate a diverse array of cellular events, including the control of cell growth, cytoskeletal reorganization, and the activation of protein kinases. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Mar 2009]
The protein browser displays the antigen location on the target protein(s) and the features of the target protein. The tabs at the top of the protein view section can be used to switch between the different splice variants to which an antigen has been mapped.
At the top of the view, the position of the antigen (identified by the corresponding HPA identifier) is shown as a green bar. A yellow triangle on the bar indicates a <100% sequence identity to the protein target.
Under the antigens, the maximum percent sequence identity of the protein to all other proteins from other human genes is displayed, using a sliding window of 10 aa residues (HsID 10) or 50 aa residues (HsID 50). The region with the lowest possible identity is always selected for antigen design, with a maximum identity of 60% allowed for designing a single-target antigen (read more).
The curve in blue displays the predicted antigenicity i.e. the tendency for different regions of the protein to generate an immune response, with peak regions being predicted to be more antigenic.The curve shows average values based on a sliding window approach using an in-house propensity scale. (read more).
If a signal peptide is predicted by a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius (turquoise) and/or transmembrane regions (orange) are predicted by MDM, these are displayed.
Low complexity regions are shown in yellow and InterPro regions in green. Common (purple) and unique (grey) regions between different splice variants of the gene are also displayed (read more), and at the bottom of the protein view is the protein scale.
RAC1-001
RAC1-002
PROTEIN INFORMATIONi
The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database.
The ENSP identifier links to the Ensembl website protein summary, while the ENST identifier links to the Ensembl website transcript summary for the selected splice variant. The data in the UniProt column can be expanded to show links to all matching UniProt identifiers for this protein.
The protein classes assigned to this protein are shown if expanding the data in the protein class column. Parent protein classes are in bold font and subclasses are listed under the parent class.
The Gene Ontology terms assigned to this protein are listed if expanding the Gene ontology column. The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide (according to a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius) and the number of predicted transmembrane region(s) (according to MDM) are also reported.
P63000 [Direct mapping] Ras-related C3 botulinum toxin substrate 1 A4D2P1 [Target identity:100%; Query identity:100%] Ras-related C3 botulinum toxin substrate 1 (Rho family, small GTP binding protein Rac1); Ras-related C3 botulinum toxin substrate 1 (Rho family, small GTP binding protein Rac1), isoform CRA_a; Ras-related C3 botulinum toxin substrate 1 isoform Rac1; cDNA FLJ30431 fis, clone BRACE2008968, highly similar to Ras-related C3 botulinum toxin substrate 1; cDNA FLJ75553, highly similar to Homo sapiens ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1) (RAC1), transcript variant Rac1, mRNA
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Predicted intracellular proteins RAS pathway related proteins Cancer-related genes Candidate cancer biomarkers Mutated cancer genes Mutational cancer driver genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Missense Mutations COSMIC Frameshift Mutations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
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GO:0000166 [nucleotide binding] GO:0001934 [positive regulation of protein phosphorylation] GO:0003924 [GTPase activity] GO:0005515 [protein binding] GO:0005525 [GTP binding] GO:0005622 [intracellular] GO:0005737 [cytoplasm] GO:0005789 [endoplasmic reticulum membrane] GO:0005802 [trans-Golgi network] GO:0005829 [cytosol] GO:0005884 [actin filament] GO:0005886 [plasma membrane] GO:0005925 [focal adhesion] GO:0006928 [movement of cell or subcellular component] GO:0006954 [inflammatory response] GO:0007155 [cell adhesion] GO:0007160 [cell-matrix adhesion] GO:0007264 [small GTPase mediated signal transduction] GO:0007596 [blood coagulation] GO:0008361 [regulation of cell size] GO:0009611 [response to wounding] GO:0009653 [anatomical structure morphogenesis] GO:0010310 [regulation of hydrogen peroxide metabolic process] GO:0010592 [positive regulation of lamellipodium assembly] GO:0010811 [positive regulation of cell-substrate adhesion] GO:0016020 [membrane] GO:0019899 [enzyme binding] GO:0030027 [lamellipodium] GO:0030032 [lamellipodium assembly] GO:0030036 [actin cytoskeleton organization] GO:0030041 [actin filament polymerization] GO:0030168 [platelet activation] GO:0030334 [regulation of cell migration] GO:0030667 [secretory granule membrane] GO:0031012 [extracellular matrix] GO:0031295 [T cell costimulation] GO:0031529 [ruffle organization] GO:0031996 [thioesterase binding] GO:0032707 [negative regulation of interleukin-23 production] GO:0034446 [substrate adhesion-dependent cell spreading] GO:0035025 [positive regulation of Rho protein signal transduction] GO:0035556 [intracellular signal transduction] GO:0036464 [cytoplasmic ribonucleoprotein granule] GO:0038095 [Fc-epsilon receptor signaling pathway] GO:0038096 [Fc-gamma receptor signaling pathway involved in phagocytosis] GO:0042470 [melanosome] GO:0043065 [positive regulation of apoptotic process] GO:0043197 [dendritic spine] GO:0043312 [neutrophil degranulation] GO:0048010 [vascular endothelial growth factor receptor signaling pathway] GO:0048013 [ephrin receptor signaling pathway] GO:0048261 [negative regulation of receptor-mediated endocytosis] GO:0048870 [cell motility] GO:0050690 [regulation of defense response to virus by virus] GO:0051022 [Rho GDP-dissociation inhibitor binding] GO:0051056 [regulation of small GTPase mediated signal transduction] GO:0051496 [positive regulation of stress fiber assembly] GO:0051668 [localization within membrane] GO:0051894 [positive regulation of focal adhesion assembly] GO:0060071 [Wnt signaling pathway, planar cell polarity pathway] GO:0060263 [regulation of respiratory burst] GO:0070062 [extracellular exosome] GO:0071526 [semaphorin-plexin signaling pathway] GO:0090023 [positive regulation of neutrophil chemotaxis] GO:0101003 [ficolin-1-rich granule membrane] GO:1900026 [positive regulation of substrate adhesion-dependent cell spreading]
P63000 [Direct mapping] Ras-related C3 botulinum toxin substrate 1 A4D2P0 [Target identity:100%; Query identity:100%] Ras-related C3 botulinum toxin substrate 1 (Rho family, small GTP binding protein Rac1); Ras-related C3 botulinum toxin substrate 1 (Rho family, small GTP binding protein Rac1), isoform CRA_e; cDNA FLJ77333, highly similar to Homo sapiens ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1) (RAC1), transcript variant Rac1b, mRNA
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SCAMPI predicted membrane proteins Predicted intracellular proteins RAS pathway related proteins Cancer-related genes Candidate cancer biomarkers Mutated cancer genes Mutational cancer driver genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Missense Mutations COSMIC Frameshift Mutations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)