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Field

Term
Gene name

Class

Subclass

Chromosome

External id

In atlas

Reliability

Reliability

Reliability

Validation

Method

Validation

Method

Validation

Method

Validation

Location

Searches

Tissue

Cell type

Expression

Tissue

Specificity

Cell line

Specificity

Tissue

Detectable

Cell line

Detectable

Category

Score

Score

Score

Antibodies

Column

 
 
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POLR1D
  • TISSUE

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  • CANCER

CANCER ATLAS

GENE/PROTEIN

Antibody validation

Dictionary

Level of antibody staining/expression





High
Medium
Low
Not detected

CANCER ATLASi

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.

For histological reference, visit the histological dictionary.

Gene description

Polymerase (RNA) I polypeptide D, 16kDa

Protein class

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.

HPA039337

Tissue

Cancer staining

Protein
expression of
normal tissue

Breast cancer
 
Carcinoid
 
Cervical cancer
 
 
Colorectal cancer
 
 
Endometrial cancer
 
 
Glioma
 
Head and neck cancer
 
 
Liver cancer
 
 
Lung cancer
 
 
Lymphoma
 
 
 

Tissue

Cancer staining

Protein
expression of
normal tissue

Melanoma
 
Ovarian cancer
 
Pancreatic cancer
 
Prostate cancer
 
Renal cancer
 
Skin cancer
 
Stomach cancer
 
 
Testis cancer
 
Thyroid cancer
 
Urothelial cancer
 

Staining summary

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]

Chromosome

13

Cytoband

q12.2

Chromosome location (bp)

27620742 - 27667415

Protein evidence

Evidence at protein level (all genes)

Ensembl

ENSG00000186184 (version 83.38)

Entrez gene

51082

UniProt

Q9Y2S0 (UniProt - Evidence at protein level)

neXtProt

NX_Q9Y2S0

Antibodypedia

POLR1D antibodies

PROTEIN BROWSERi

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.

Splice variant

UniProt

Protein class

Gene ontology

Length & mass

Signal peptide
(predicted)

Transmembrane regions
(predicted)

POLR1D-001
ENSP00000483656
ENST00000489647
A0A087X0U2 [Direct mapping]
DNA-directed RNA polymerases I and III subunit RPAC2; HCG2020048, isoform CRA_c
Show all
Predicted intracellular proteins
RNA polymerase related proteins
Protein evidence (Ezkurdia et al 2014)
Show all
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]
Show all
42 aa
4.8 kDa
No 0
POLR1D-003
ENSP00000302478
ENST00000302979
Q9Y2S0 [Direct mapping]
DNA-directed RNA polymerases I and III subunit RPAC2
Show all
Predicted intracellular proteins
RNA polymerase related proteins
Disease related genes
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
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]
Show all
133 aa
15.2 kDa
No 0
POLR1D-004
ENSP00000382604
ENST00000399697
Q9Y2S0 [Direct mapping]
DNA-directed RNA polymerases I and III subunit RPAC2
Show all
Predicted intracellular proteins
RNA polymerase related proteins
Disease related genes
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
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]
Show all
122 aa
14.3 kDa
No 0
POLR1D-005
ENSP00000486928
ENST00000630983
Q7Z776 [Direct mapping]
DNA-directed RNA polymerases I and III subunit RPAC2; POLR1D protein
Show all
Predicted intracellular proteins
RNA polymerase related proteins
Protein evidence (Ezkurdia et al 2014)
Show all
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]
Show all
33 aa
3.8 kDa
No 0
POLR1D-006
ENSP00000478213
ENST00000621089
A0A087WTY1 [Direct mapping]
DNA-directed RNA polymerases I and III subunit RPAC2
Show all
Predicted intracellular proteins
RNA polymerase related proteins
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
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]
Show all
94 aa
11 kDa
No 0
POLR1D-009
ENSP00000486327
ENST00000627604
Predicted intracellular proteins
RNA polymerase related proteins
Protein evidence (Ezkurdia et al 2014)
Show all
3 aa
0.3 kDa
No 0
POLR1D-012
ENSP00000382603
ENST00000399696
Predicted intracellular proteins
RNA polymerase related proteins
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0003677 [DNA binding]
GO:0003899 [DNA-directed RNA polymerase activity]
GO:0006351 [transcription, DNA-templated]
GO:0046983 [protein dimerization activity]
Show all
116 aa
13.3 kDa
No 0

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The Human Protein Atlas project is funded
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