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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):
Mixed
HPA (cell line):
Cell line enriched (A549)
HPA (normal tissue):
Group enriched (esophagus, skin, stomach)
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.
Mainly cytoplasmic expression in several tissues, most abundant in squamous epithelia and stomach.
IMMUNOHISTOCHEMISTRY DATA RELIABILITY
Data reliability descriptioni
Standardized explanatory sentences with additional information required for full understanding of the knowledge-based expression profile.
Antibody staining mainly 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.
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.
A few liver cancers, fraction of tumor cells in a few squamous cell carcinomas along with a rare case each of urothelial, colorectal and ovarian cancer displayed moderate to strong cytoplasmic and nuclear positivity. Remaining cancer tissues were negative.
Moderate cytoplasmic and nuclear staining was displayed in tumor cells in a small subset of cases of lung, skin, head and neck, liver, colorectal, testicular and urothelial carcinoma. All other cancers were weakly stained or negative.
Several cases of squamous cell carcinomas of skin, cervix and lung displayed strong cytoplasmic and nuclear staining. Additional membranous positivity was displayed by colorectal and gastric carcinomas. Remaining cancer tissues were 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
ALDH3A1 (HGNC Symbol)
Synonyms
ALDH3
Description
Aldehyde dehydrogenase 3 family member A1 (HGNC Symbol)
Entrez gene summary
Aldehyde dehydrogenases oxidize various aldehydes to the corresponding acids. They are involved in the detoxification of alcohol-derived acetaldehyde and in the metabolism of corticosteroids, biogenic amines, neurotransmitters, and lipid peroxidation. The enzyme encoded by this gene forms a cytoplasmic homodimer that preferentially oxidizes aromatic and medium-chain (6 carbons or more) saturated and unsaturated aldehyde substrates. It is thought to promote resistance to UV and 4-hydroxy-2-nonenal-induced oxidative damage in the cornea. The gene is located within the Smith-Magenis syndrome region on chromosome 17. Multiple alternatively spliced variants, encoding the same protein, have been identified. [provided by RefSeq, Sep 2008]
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.
ALDH3A1-001
ALDH3A1-005
ALDH3A1-007
ALDH3A1-009
ALDH3A1-010
ALDH3A1-013
ALDH3A1-014
ALDH3A1-016
ALDH3A1-018
ALDH3A1-201
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 Oxidoreductases MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
Show all
GO:0004029 [aldehyde dehydrogenase (NAD) activity] GO:0004030 [aldehyde dehydrogenase [NAD(P)+] activity] GO:0005515 [protein binding] GO:0005615 [extracellular space] GO:0005737 [cytoplasm] GO:0005783 [endoplasmic reticulum] GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0006081 [cellular aldehyde metabolic process] GO:0006805 [xenobiotic metabolic process] GO:0008106 [alcohol dehydrogenase (NADP+) activity] GO:0008152 [metabolic process] GO:0016491 [oxidoreductase activity] GO:0016620 [oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor] GO:0018479 [benzaldehyde dehydrogenase (NAD+) activity] GO:0055114 [oxidation-reduction process]
MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0008152 [metabolic process] GO:0016491 [oxidoreductase activity] GO:0016620 [oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor] GO:0055114 [oxidation-reduction process]
MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0008152 [metabolic process] GO:0016491 [oxidoreductase activity] GO:0016620 [oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor] GO:0055114 [oxidation-reduction process]
MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)
Show all
GO:0008152 [metabolic process] GO:0016491 [oxidoreductase activity] GO:0016620 [oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor] GO:0055114 [oxidation-reduction process]
Enzymes ENZYME proteins Oxidoreductases MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
Show all
GO:0001666 [response to hypoxia] GO:0004028 [3-chloroallyl aldehyde dehydrogenase activity] GO:0004029 [aldehyde dehydrogenase (NAD) activity] GO:0004030 [aldehyde dehydrogenase [NAD(P)+] activity] GO:0005515 [protein binding] GO:0005615 [extracellular space] GO:0005737 [cytoplasm] GO:0005783 [endoplasmic reticulum] GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0006081 [cellular aldehyde metabolic process] GO:0006805 [xenobiotic metabolic process] GO:0007568 [aging] GO:0007584 [response to nutrient] GO:0008106 [alcohol dehydrogenase (NADP+) activity] GO:0008152 [metabolic process] GO:0008284 [positive regulation of cell proliferation] GO:0014070 [response to organic cyclic compound] GO:0016021 [integral component of membrane] GO:0016491 [oxidoreductase activity] GO:0016620 [oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor] GO:0018479 [benzaldehyde dehydrogenase (NAD+) activity] GO:0042493 [response to drug] GO:0051384 [response to glucocorticoid] GO:0051591 [response to cAMP] GO:0055114 [oxidation-reduction process]
MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)
Show all
GO:0008152 [metabolic process] GO:0016491 [oxidoreductase activity] GO:0016620 [oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor] GO:0055114 [oxidation-reduction process]
Enzymes ENZYME proteins Oxidoreductases MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
Show all
GO:0004029 [aldehyde dehydrogenase (NAD) activity] GO:0004030 [aldehyde dehydrogenase [NAD(P)+] activity] GO:0005515 [protein binding] GO:0005615 [extracellular space] GO:0005737 [cytoplasm] GO:0005783 [endoplasmic reticulum] GO:0005829 [cytosol] GO:0005886 [plasma membrane] GO:0006081 [cellular aldehyde metabolic process] GO:0006805 [xenobiotic metabolic process] GO:0008106 [alcohol dehydrogenase (NADP+) activity] GO:0008152 [metabolic process] GO:0016491 [oxidoreductase activity] GO:0016620 [oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor] GO:0018479 [benzaldehyde dehydrogenase (NAD+) activity] GO:0055114 [oxidation-reduction process]
The Human Protein Atlas project is funded
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