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The cancer tissue page shows antibody staining in 20 different cancers. The assay and annotation is described here.
This page starts with information about the protein evidence and, when applicable, also protein class. Below the summary, a selection of four standard cancer tissue samples is displayed as representative of the overall staining pattern. From left: colorectal cancer, breast cancer, prostate cancer and lung cancer. An additional 5th image can be added as a complement.
Disease related genes, Predicted intracellular proteins, RNA polymerase related proteins
Protein evidence
Evidence at protein level
Colorectal cancer
Breast cancer
Prostate cancer
Lung cancer
Liver cancer
STAINING SUMMARYi
The cancer tissue summary page shows antibody staining in 20 different cancers. The assay and annotation is described here.
For each cancer, the fraction of samples with antibody staining/protein expression level high, medium, low, or not detected are provided by the blue-scale color-coding (as described by the color-coding scale in the box to the right). The length of the bar represents the number of patient samples analyzed (max=12 patients). 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. The tooltip function displays additional data for the features in the staining summary view.
Next to the cancer staining data, the protein expression data of normal tissues or specific cell types corresponding to each cancer are shown and protein expression levels are indicated by the blue-scale color coding.
At the bottom of the page, a summary of the overall protein expression pattern across the analyzed cancer tissues as well as information about literature conformity are presented.
Most cancers displayed weak to moderate cytoplasmic immunoreactivity. A few cases of colorectal, breast and ovarian cancers were strongly stained. Malignant lymphomas, urothelial and skin cancers 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
POLR1D (HGNC Symbol)
Synonyms
MGC9850, RPA16, RPA9, RPAC2, RPO1-3
Description
Polymerase (RNA) I polypeptide D, 16kDa (HGNC Symbol)
Entrez gene summary
The protein encoded by this gene is a component of the RNA polymerase I and RNA polymerase III complexes, which function in the synthesis of ribosomal RNA precursors and small RNAs, respectively. Mutations in this gene are a cause of Treacher Collins syndrome (TCS), a craniofacial development disorder. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2011]
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) (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.
POLR1D-001
POLR1D-003
POLR1D-004
POLR1D-005
POLR1D-006
POLR1D-009
POLR1D-012
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.
A0A087X0U2 [Direct mapping] DNA-directed RNA polymerases I and III subunit RPAC2; HCG2020048, isoform CRA_c
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Predicted intracellular proteins RNA polymerase related proteins Protein evidence (Ezkurdia et al 2014)
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GO:0001054 [RNA polymerase I activity] GO:0001056 [RNA polymerase III activity] GO:0005666 [DNA-directed RNA polymerase III complex] GO:0005736 [DNA-directed RNA polymerase I complex] GO:0006360 [transcription from RNA polymerase I promoter] GO:0006383 [transcription from RNA polymerase III promoter]
Q9Y2S0 [Direct mapping] DNA-directed RNA polymerases I and III subunit RPAC2
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Predicted intracellular proteins RNA polymerase related proteins Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
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GO:0001054 [RNA polymerase I activity] GO:0001056 [RNA polymerase III activity] GO:0003677 [DNA binding] GO:0003899 [DNA-directed RNA polymerase activity] GO:0005515 [protein binding] GO:0005654 [nucleoplasm] GO:0005666 [DNA-directed RNA polymerase III complex] GO:0005736 [DNA-directed RNA polymerase I complex] GO:0005829 [cytosol] GO:0006351 [transcription, DNA-templated] GO:0006360 [transcription from RNA polymerase I promoter] GO:0006361 [transcription initiation from RNA polymerase I promoter] GO:0006362 [transcription elongation from RNA polymerase I promoter] GO:0006363 [termination of RNA polymerase I transcription] GO:0006383 [transcription from RNA polymerase III promoter] GO:0006385 [transcription elongation from RNA polymerase III promoter] GO:0006386 [termination of RNA polymerase III transcription] GO:0010467 [gene expression] GO:0032481 [positive regulation of type I interferon production] GO:0040029 [regulation of gene expression, epigenetic] GO:0045087 [innate immune response] GO:0045814 [negative regulation of gene expression, epigenetic] GO:0046983 [protein dimerization activity]
Q9Y2S0 [Direct mapping] DNA-directed RNA polymerases I and III subunit RPAC2
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Predicted intracellular proteins RNA polymerase related proteins Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
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GO:0001054 [RNA polymerase I activity] GO:0001056 [RNA polymerase III activity] GO:0003677 [DNA binding] GO:0005515 [protein binding] GO:0005654 [nucleoplasm] GO:0005666 [DNA-directed RNA polymerase III complex] GO:0005736 [DNA-directed RNA polymerase I complex] GO:0005829 [cytosol] GO:0006360 [transcription from RNA polymerase I promoter] GO:0006361 [transcription initiation from RNA polymerase I promoter] GO:0006362 [transcription elongation from RNA polymerase I promoter] GO:0006363 [termination of RNA polymerase I transcription] GO:0006383 [transcription from RNA polymerase III promoter] GO:0006385 [transcription elongation from RNA polymerase III promoter] GO:0006386 [termination of RNA polymerase III transcription] GO:0010467 [gene expression] GO:0032481 [positive regulation of type I interferon production] GO:0040029 [regulation of gene expression, epigenetic] GO:0045087 [innate immune response] GO:0045814 [negative regulation of gene expression, epigenetic] GO:0046983 [protein dimerization activity]
Q7Z776 [Direct mapping] DNA-directed RNA polymerases I and III subunit RPAC2; POLR1D protein
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Predicted intracellular proteins RNA polymerase related proteins Protein evidence (Ezkurdia et al 2014)
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GO:0001054 [RNA polymerase I activity] GO:0001056 [RNA polymerase III activity] GO:0005666 [DNA-directed RNA polymerase III complex] GO:0005736 [DNA-directed RNA polymerase I complex] GO:0006360 [transcription from RNA polymerase I promoter] GO:0006383 [transcription from RNA polymerase III promoter]
A0A087WTY1 [Direct mapping] DNA-directed RNA polymerases I and III subunit RPAC2
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Predicted intracellular proteins RNA polymerase related proteins Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
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GO:0001054 [RNA polymerase I activity] GO:0001056 [RNA polymerase III activity] GO:0005666 [DNA-directed RNA polymerase III complex] GO:0005736 [DNA-directed RNA polymerase I complex] GO:0006360 [transcription from RNA polymerase I promoter] GO:0006383 [transcription from RNA polymerase III promoter]
