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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):
Cell line enhanced (Daudi, HEL, HL-60, REH)
HPA (normal tissue):
Mixed
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.
Distinct cytoplasmic expression most tissues, highly abundant in glial cells of CNS, glandular and immune cells in several tissues.
IMMUNOHISTOCHEMISTRY DATA RELIABILITY
Data reliability descriptioni
Standardized explanatory sentences with additional information required for full understanding of the knowledge-based expression profile.
Antibody staining consistent with RNA expression data.
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.
Gene product is not prognostic.
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RNA EXPRESSION OVERVIEWi
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.
Selected cases of colorectal and ovarian cancers moderate cytoplasmic positivity. Remaining malignancies were weakly stained or negative.
Moderate to strong cytoplasmic positivity was observed in malignant lymphomas, colorectal, ovarian, endometrial and gastric cancers. Other malignancies were in general weakly stained or 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
SYK
Synonyms
Description
Spleen associated tyrosine kinase (HGNC Symbol)
Entrez gene summary
This gene encodes a member of the family of non-receptor type Tyr protein kinases. This protein is widely expressed in hematopoietic cells and is involved in coupling activated immunoreceptors to downstream signaling events that mediate diverse cellular responses, including proliferation, differentiation, and phagocytosis. It is thought to be a modulator of epithelial cell growth and a potential tumour suppressor in human breast carcinomas. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Mar 2010]
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.
SYK-001
SYK-002
SYK-003
SYK-004
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.
Enzymes ENZYME proteins Transferases Kinases Tyr protein kinases SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Cancer-related genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Translocations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
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GO:0000166 [nucleotide binding] GO:0000187 [activation of MAPK activity] GO:0001525 [angiogenesis] GO:0001820 [serotonin secretion] GO:0001945 [lymph vessel development] GO:0002092 [positive regulation of receptor internalization] GO:0002223 [stimulatory C-type lectin receptor signaling pathway] GO:0002250 [adaptive immune response] GO:0002281 [macrophage activation involved in immune response] GO:0002283 [neutrophil activation involved in immune response] GO:0002366 [leukocyte activation involved in immune response] GO:0002376 [immune system process] GO:0002554 [serotonin secretion by platelet] GO:0004672 [protein kinase activity] GO:0004674 [protein serine/threonine kinase activity] GO:0004713 [protein tyrosine kinase activity] GO:0004715 [non-membrane spanning protein tyrosine kinase activity] GO:0004716 [signal transducer, downstream of receptor, with protein tyrosine kinase activity] GO:0005178 [integrin binding] GO:0005515 [protein binding] GO:0005524 [ATP binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0006468 [protein phosphorylation] GO:0006954 [inflammatory response] GO:0007159 [leukocyte cell-cell adhesion] GO:0007166 [cell surface receptor signaling pathway] GO:0007167 [enzyme linked receptor protein signaling pathway] GO:0007169 [transmembrane receptor protein tyrosine kinase signaling pathway] GO:0007229 [integrin-mediated signaling pathway] GO:0007257 [activation of JUN kinase activity] GO:0008283 [cell proliferation] GO:0009887 [animal organ morphogenesis] GO:0010543 [regulation of platelet activation] GO:0010803 [regulation of tumor necrosis factor-mediated signaling pathway] GO:0016020 [membrane] GO:0016032 [viral process] GO:0016301 [kinase activity] GO:0016310 [phosphorylation] GO:0016740 [transferase activity] GO:0018105 [peptidyl-serine phosphorylation] GO:0018108 [peptidyl-tyrosine phosphorylation] GO:0019370 [leukotriene biosynthetic process] GO:0019815 [B cell receptor complex] GO:0019901 [protein kinase binding] GO:0019902 [phosphatase binding] GO:0030168 [platelet activation] GO:0030593 [neutrophil chemotaxis] GO:0031234 [extrinsic component of cytoplasmic side of plasma membrane] GO:0031623 [receptor internalization] GO:0032009 [early phagosome] GO:0032481 [positive regulation of type I interferon production] GO:0032928 [regulation of superoxide anion generation] GO:0033630 [positive regulation of cell adhesion mediated by integrin] GO:0035325 [Toll-like receptor binding] GO:0035556 [intracellular signal transduction] GO:0038083 [peptidyl-tyrosine autophosphorylation] GO:0038095 [Fc-epsilon receptor signaling pathway] GO:0038096 [Fc-gamma receptor signaling pathway involved in phagocytosis] GO:0042101 [T cell receptor complex] GO:0042742 [defense response to bacterium] GO:0042991 [transcription factor import into nucleus] GO:0043234 [protein complex] GO:0043306 [positive regulation of mast cell degranulation] GO:0043313 [regulation of neutrophil degranulation] GO:0043366 [beta selection] GO:0045087 [innate immune response] GO:0045401 [positive regulation of interleukin-3 biosynthetic process] GO:0045425 [positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process] GO:0045579 [positive regulation of B cell differentiation] GO:0045588 [positive regulation of gamma-delta T cell differentiation] GO:0045780 [positive regulation of bone resorption] GO:0046638 [positive regulation of alpha-beta T cell differentiation] GO:0046641 [positive regulation of alpha-beta T cell proliferation] GO:0046777 [protein autophosphorylation] GO:0048514 [blood vessel morphogenesis] GO:0050715 [positive regulation of cytokine secretion] GO:0050731 [positive regulation of peptidyl-tyrosine phosphorylation] GO:0050764 [regulation of phagocytosis] GO:0050850 [positive regulation of calcium-mediated signaling] GO:0050853 [B cell receptor signaling pathway] GO:0051090 [regulation of sequence-specific DNA binding transcription factor activity] GO:0070372 [regulation of ERK1 and ERK2 cascade] GO:0071226 [cellular response to molecule of fungal origin] GO:0071404 [cellular response to low-density lipoprotein particle stimulus] GO:0090237 [regulation of arachidonic acid secretion] GO:0090330 [regulation of platelet aggregation]
Enzymes ENZYME proteins Transferases Kinases Tyr protein kinases SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Cancer-related genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Translocations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000166 [nucleotide binding] GO:0001525 [angiogenesis] GO:0001945 [lymph vessel development] GO:0002223 [stimulatory C-type lectin receptor signaling pathway] GO:0002250 [adaptive immune response] GO:0002281 [macrophage activation involved in immune response] GO:0002283 [neutrophil activation involved in immune response] GO:0002366 [leukocyte activation involved in immune response] GO:0002376 [immune system process] GO:0002554 [serotonin secretion by platelet] GO:0004672 [protein kinase activity] GO:0004674 [protein serine/threonine kinase activity] GO:0004713 [protein tyrosine kinase activity] GO:0004715 [non-membrane spanning protein tyrosine kinase activity] GO:0005178 [integrin binding] GO:0005515 [protein binding] GO:0005524 [ATP binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0006468 [protein phosphorylation] GO:0006954 [inflammatory response] GO:0007159 [leukocyte cell-cell adhesion] GO:0007169 [transmembrane receptor protein tyrosine kinase signaling pathway] GO:0007229 [integrin-mediated signaling pathway] GO:0008283 [cell proliferation] GO:0009887 [animal organ morphogenesis] GO:0010543 [regulation of platelet activation] GO:0010803 [regulation of tumor necrosis factor-mediated signaling pathway] GO:0016020 [membrane] GO:0016032 [viral process] GO:0016301 [kinase activity] GO:0016310 [phosphorylation] GO:0016740 [transferase activity] GO:0030168 [platelet activation] GO:0030593 [neutrophil chemotaxis] GO:0031234 [extrinsic component of cytoplasmic side of plasma membrane] GO:0031623 [receptor internalization] GO:0032009 [early phagosome] GO:0032928 [regulation of superoxide anion generation] GO:0033630 [positive regulation of cell adhesion mediated by integrin] GO:0035556 [intracellular signal transduction] GO:0038083 [peptidyl-tyrosine autophosphorylation] GO:0038095 [Fc-epsilon receptor signaling pathway] GO:0038096 [Fc-gamma receptor signaling pathway involved in phagocytosis] GO:0042101 [T cell receptor complex] GO:0042742 [defense response to bacterium] GO:0042991 [transcription factor import into nucleus] GO:0043234 [protein complex] GO:0043306 [positive regulation of mast cell degranulation] GO:0043313 [regulation of neutrophil degranulation] GO:0045087 [innate immune response] GO:0045579 [positive regulation of B cell differentiation] GO:0045780 [positive regulation of bone resorption] GO:0046641 [positive regulation of alpha-beta T cell proliferation] GO:0048514 [blood vessel morphogenesis] GO:0050764 [regulation of phagocytosis] GO:0050853 [B cell receptor signaling pathway] GO:0051090 [regulation of sequence-specific DNA binding transcription factor activity] GO:0070372 [regulation of ERK1 and ERK2 cascade] GO:0071226 [cellular response to molecule of fungal origin] GO:0071404 [cellular response to low-density lipoprotein particle stimulus] GO:0090237 [regulation of arachidonic acid secretion] GO:0090330 [regulation of platelet aggregation]
Enzymes ENZYME proteins Transferases Kinases Tyr protein kinases SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Cancer-related genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Translocations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000166 [nucleotide binding] GO:0001525 [angiogenesis] GO:0001945 [lymph vessel development] GO:0002223 [stimulatory C-type lectin receptor signaling pathway] GO:0002250 [adaptive immune response] GO:0002281 [macrophage activation involved in immune response] GO:0002283 [neutrophil activation involved in immune response] GO:0002366 [leukocyte activation involved in immune response] GO:0002376 [immune system process] GO:0002554 [serotonin secretion by platelet] GO:0004672 [protein kinase activity] GO:0004674 [protein serine/threonine kinase activity] GO:0004713 [protein tyrosine kinase activity] GO:0004715 [non-membrane spanning protein tyrosine kinase activity] GO:0005178 [integrin binding] GO:0005515 [protein binding] GO:0005524 [ATP binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0006468 [protein phosphorylation] GO:0006954 [inflammatory response] GO:0007159 [leukocyte cell-cell adhesion] GO:0007169 [transmembrane receptor protein tyrosine kinase signaling pathway] GO:0007229 [integrin-mediated signaling pathway] GO:0008283 [cell proliferation] GO:0009887 [animal organ morphogenesis] GO:0010543 [regulation of platelet activation] GO:0010803 [regulation of tumor necrosis factor-mediated signaling pathway] GO:0016020 [membrane] GO:0016032 [viral process] GO:0016301 [kinase activity] GO:0016310 [phosphorylation] GO:0016740 [transferase activity] GO:0018108 [peptidyl-tyrosine phosphorylation] GO:0030168 [platelet activation] GO:0030593 [neutrophil chemotaxis] GO:0031234 [extrinsic component of cytoplasmic side of plasma membrane] GO:0031623 [receptor internalization] GO:0032009 [early phagosome] GO:0032928 [regulation of superoxide anion generation] GO:0033630 [positive regulation of cell adhesion mediated by integrin] GO:0035556 [intracellular signal transduction] GO:0038083 [peptidyl-tyrosine autophosphorylation] GO:0038095 [Fc-epsilon receptor signaling pathway] GO:0038096 [Fc-gamma receptor signaling pathway involved in phagocytosis] GO:0042101 [T cell receptor complex] GO:0042742 [defense response to bacterium] GO:0042991 [transcription factor import into nucleus] GO:0043234 [protein complex] GO:0043306 [positive regulation of mast cell degranulation] GO:0043313 [regulation of neutrophil degranulation] GO:0045087 [innate immune response] GO:0045579 [positive regulation of B cell differentiation] GO:0045780 [positive regulation of bone resorption] GO:0046641 [positive regulation of alpha-beta T cell proliferation] GO:0048514 [blood vessel morphogenesis] GO:0050764 [regulation of phagocytosis] GO:0050853 [B cell receptor signaling pathway] GO:0051090 [regulation of sequence-specific DNA binding transcription factor activity] GO:0070372 [regulation of ERK1 and ERK2 cascade] GO:0071226 [cellular response to molecule of fungal origin] GO:0071404 [cellular response to low-density lipoprotein particle stimulus] GO:0090237 [regulation of arachidonic acid secretion] GO:0090330 [regulation of platelet aggregation]
Enzymes ENZYME proteins Transferases Kinases Tyr protein kinases SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Cancer-related genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Translocations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000166 [nucleotide binding] GO:0001525 [angiogenesis] GO:0001945 [lymph vessel development] GO:0002223 [stimulatory C-type lectin receptor signaling pathway] GO:0002250 [adaptive immune response] GO:0002281 [macrophage activation involved in immune response] GO:0002283 [neutrophil activation involved in immune response] GO:0002366 [leukocyte activation involved in immune response] GO:0002376 [immune system process] GO:0002554 [serotonin secretion by platelet] GO:0004672 [protein kinase activity] GO:0004674 [protein serine/threonine kinase activity] GO:0004713 [protein tyrosine kinase activity] GO:0004715 [non-membrane spanning protein tyrosine kinase activity] GO:0005178 [integrin binding] GO:0005515 [protein binding] GO:0005524 [ATP binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0006468 [protein phosphorylation] GO:0006954 [inflammatory response] GO:0007159 [leukocyte cell-cell adhesion] GO:0007169 [transmembrane receptor protein tyrosine kinase signaling pathway] GO:0007229 [integrin-mediated signaling pathway] GO:0008283 [cell proliferation] GO:0009887 [animal organ morphogenesis] GO:0010543 [regulation of platelet activation] GO:0010803 [regulation of tumor necrosis factor-mediated signaling pathway] GO:0016020 [membrane] GO:0016032 [viral process] GO:0016301 [kinase activity] GO:0016310 [phosphorylation] GO:0016740 [transferase activity] GO:0018108 [peptidyl-tyrosine phosphorylation] GO:0030168 [platelet activation] GO:0030593 [neutrophil chemotaxis] GO:0031234 [extrinsic component of cytoplasmic side of plasma membrane] GO:0031623 [receptor internalization] GO:0032009 [early phagosome] GO:0032928 [regulation of superoxide anion generation] GO:0033630 [positive regulation of cell adhesion mediated by integrin] GO:0035556 [intracellular signal transduction] GO:0038083 [peptidyl-tyrosine autophosphorylation] GO:0038095 [Fc-epsilon receptor signaling pathway] GO:0038096 [Fc-gamma receptor signaling pathway involved in phagocytosis] GO:0042101 [T cell receptor complex] GO:0042742 [defense response to bacterium] GO:0042991 [transcription factor import into nucleus] GO:0043234 [protein complex] GO:0043306 [positive regulation of mast cell degranulation] GO:0043313 [regulation of neutrophil degranulation] GO:0045087 [innate immune response] GO:0045579 [positive regulation of B cell differentiation] GO:0045780 [positive regulation of bone resorption] GO:0046641 [positive regulation of alpha-beta T cell proliferation] GO:0048514 [blood vessel morphogenesis] GO:0050764 [regulation of phagocytosis] GO:0050853 [B cell receptor signaling pathway] GO:0051090 [regulation of sequence-specific DNA binding transcription factor activity] GO:0070372 [regulation of ERK1 and ERK2 cascade] GO:0071226 [cellular response to molecule of fungal origin] GO:0071404 [cellular response to low-density lipoprotein particle stimulus] GO:0090237 [regulation of arachidonic acid secretion] GO:0090330 [regulation of platelet aggregation]
The Human Protein Atlas project is funded
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