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RNA category is based on mRNA expression levels in the analyzed samples (RNA assay description). The categories include: tissue enriched, group enriched, tissue enhanced, expressed in all, mixed and not detected. RNA category is calculated separately for data imported from The Genotype-Tissue Expression project (GTEX), FANTOM5 Consortium (FANTOM5) and internally generated Human Protein Atlas (HPA) data.
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 expressioni
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.
Standardized explanatory sentences with additional information required for full understanding of the knowledge-based expression profile.
Antibody staining mainly consistent with RNA expression data. Cytoplasmic staining observed and disregarded.
Reliability scorei
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.
Below is an overview of RNA and protein expression data generated in the Human Protein Atlas project. Analyzed tissues are divided into color-coded groups according to which functional features they have in common. For each group, a list of included tissues is accessed by clicking on group name, group symbol, RNA bar, or protein bar. Subsequent selection of a particular tissue in this list links to the image data page.
Images of selected tissues give a visual summary of the protein expression profile furthest to the right.
The gray human body provides links to a histology dictionary when clicking on any part of the figure.
RNA expression (TPM)i
RNA-seq results generated in HPA are reported as number of transcripts per million (TPM). Each bar represents the highest expression score found in a particular group of tissues. The assay is described more in detail in Assays & Annotation.
Protein expression (score)i
Each bar represents the highest expression score found in a particular group of tissues. Protein expression scores are based on a best estimate of the "true" protein expression from a knowledge-based annotation, described more in detail under Assays & annotation. For genes where more than one antibody has been used, a collective score is set displaying the estimated true protein expression.
Protein expression data is shown for each of the 44 tissues. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. Mouse-over function shows protein score for analyzed cell types in a selected tissue. To access image data click on tissue name or bar. Annotation of protein expression is described in detail in Assays & annotation.
For genes with available protein data for which a knowledge-based annotation gave inconclusive results, no protein expression data is displayed in the protein expression data overview. However, all immunohistochemical images are still available and the annotation data can be found under Primary data.
Organ
Expression
Alphabetical
RNA EXPRESSION OVERVIEWi
RNA expression overview shows RNA-data from three different sources: Internally generated Human Protein Atlas (HPA) RNA-seq data, RNA-seq data from the Genotype-Tissue Expression (GTEx) project and CAGE data from FANTOM5 project. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. To access sample data, click on tissue name or bar.
HPA dataseti
HPA dataset RNA-seq tissue data is reported as mean TPM (transcripts per million), corresponding to mean values of the different individual samples from each tissue. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. To access sample data, click on tissue name or bar. The RNA-seq assay is described in detail in Assays & Annotation.
RNA tissue category HPA HPA RNA tissue category (category description) is calculated based on mRNA expression levels across all tissues and include: tissue enriched, group enriched, tissue enhanced, expressed in all, mixed and not detected.
Organ
Expression
Alphabetical
RNA tissue category: Tissue enhanced (lymph node)
GTEx dataseti
GTEx dataset RNA-seq data is reported as median RPKM (reads per kilobase per million mapped reads), generated by the Genotype-Tissue Expression (GTEx) project. More information can be found in Assays & Annotation.
RNA tissue category GTEx GTEx RNA tissue category (category description) is calculated based on mRNA expression levels across all tissues and include: tissue enriched, group enriched, tissue enhanced, expressed in all, mixed and not detected.
Organ
Expression
Alphabetical
RNA tissue category: Mixed
FANTOM5 dataseti
FANTOM5 dataset Tissue data obtained through Cap Analysis of Gene Expression (CAGE) are reported as Tags Per Million, generated by the FANTOM5 project. More information can be found in Assays & Annotation.
RNA tissue category FANTOM5 FANTOM5 RNA tissue category (category description) is calculated based on gene expression levels across all tissues and include: tissue enriched, group enriched, tissue enhanced, expressed in all, mixed and not detected.
Organ
Expression
Alphabetical
RNA tissue category: Tissue enriched (thymus)
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
LEF1 (HGNC Symbol)
Synonyms
TCF10, TCF1ALPHA, TCF7L3
Description
Lymphoid enhancer binding factor 1 (HGNC Symbol)
Entrez gene summary
This gene encodes a transcription factor belonging to a family of proteins that share homology with the high mobility group protein-1. The protein encoded by this gene can bind to a functionally important site in the T-cell receptor-alpha enhancer, thereby conferring maximal enhancer activity. This transcription factor is involved in the Wnt signaling pathway, and it may function in hair cell differentiation and follicle morphogenesis. Mutations in this gene have been found in somatic sebaceous tumors. This gene has also been linked to other cancers, including androgen-independent prostate cancer. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 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.
LEF1-001
LEF1-003
LEF1-006
LEF1-018
LEF1-020
LEF1-201
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.
Predicted intracellular proteins Plasma proteins Transcription factors Other all-alpha-helical DNA-binding domains Cancer-related genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Nonsense Mutations COSMIC Missense Mutations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
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GO:0000122 [negative regulation of transcription from RNA polymerase II promoter] GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding] GO:0000978 [RNA polymerase II core promoter proximal region sequence-specific DNA binding] GO:0001077 [transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding] GO:0001228 [transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding] GO:0001569 [branching involved in blood vessel morphogenesis] GO:0001649 [osteoblast differentiation] GO:0001755 [neural crest cell migration] GO:0001756 [somitogenesis] GO:0001837 [epithelial to mesenchymal transition] GO:0001944 [vasculature development] GO:0002040 [sprouting angiogenesis] GO:0003677 [DNA binding] GO:0003682 [chromatin binding] GO:0003700 [transcription factor activity, sequence-specific DNA binding] GO:0003705 [transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005654 [nucleoplasm] GO:0005667 [transcription factor complex] GO:0005737 [cytoplasm] GO:0006351 [transcription, DNA-templated] GO:0006355 [regulation of transcription, DNA-templated] GO:0006357 [regulation of transcription from RNA polymerase II promoter] GO:0006366 [transcription from RNA polymerase II promoter] GO:0007223 [Wnt signaling pathway, calcium modulating pathway] GO:0008013 [beta-catenin binding] GO:0008134 [transcription factor binding] GO:0008284 [positive regulation of cell proliferation] GO:0008301 [DNA binding, bending] GO:0010628 [positive regulation of gene expression] GO:0010718 [positive regulation of epithelial to mesenchymal transition] GO:0016055 [Wnt signaling pathway] GO:0016202 [regulation of striated muscle tissue development] GO:0021542 [dentate gyrus development] GO:0021766 [hippocampus development] GO:0021854 [hypothalamus development] GO:0021861 [forebrain radial glial cell differentiation] GO:0021873 [forebrain neuroblast division] GO:0021879 [forebrain neuron differentiation] GO:0021943 [formation of radial glial scaffolds] GO:0022407 [regulation of cell-cell adhesion] GO:0030111 [regulation of Wnt signaling pathway] GO:0030223 [neutrophil differentiation] GO:0030284 [estrogen receptor activity] GO:0030307 [positive regulation of cell growth] GO:0030326 [embryonic limb morphogenesis] GO:0030331 [estrogen receptor binding] GO:0030335 [positive regulation of cell migration] GO:0030509 [BMP signaling pathway] GO:0030854 [positive regulation of granulocyte differentiation] GO:0030879 [mammary gland development] GO:0032696 [negative regulation of interleukin-13 production] GO:0032713 [negative regulation of interleukin-4 production] GO:0032714 [negative regulation of interleukin-5 production] GO:0032993 [protein-DNA complex] GO:0033153 [T cell receptor V(D)J recombination] GO:0035326 [enhancer binding] GO:0042100 [B cell proliferation] GO:0042393 [histone binding] GO:0042475 [odontogenesis of dentin-containing tooth] GO:0042826 [histone deacetylase binding] GO:0043027 [cysteine-type endopeptidase inhibitor activity involved in apoptotic process] GO:0043066 [negative regulation of apoptotic process] GO:0043154 [negative regulation of cysteine-type endopeptidase activity involved in apoptotic process] GO:0043392 [negative regulation of DNA binding] GO:0043401 [steroid hormone mediated signaling pathway] GO:0043565 [sequence-specific DNA binding] GO:0043586 [tongue development] GO:0043923 [positive regulation by host of viral transcription] GO:0043966 [histone H3 acetylation] GO:0043967 [histone H4 acetylation] GO:0044212 [transcription regulatory region DNA binding] GO:0045063 [T-helper 1 cell differentiation] GO:0045295 [gamma-catenin binding] GO:0045843 [negative regulation of striated muscle tissue development] GO:0045892 [negative regulation of transcription, DNA-templated] GO:0045893 [positive regulation of transcription, DNA-templated] GO:0045944 [positive regulation of transcription from RNA polymerase II promoter] GO:0046632 [alpha-beta T cell differentiation] GO:0048069 [eye pigmentation] GO:0048341 [paraxial mesoderm formation] GO:0048468 [cell development] GO:0048747 [muscle fiber development] GO:0050909 [sensory perception of taste] GO:0060021 [palate development] GO:0060033 [anatomical structure regression] GO:0060070 [canonical Wnt signaling pathway] GO:0060325 [face morphogenesis] GO:0060326 [cell chemotaxis] GO:0060561 [apoptotic process involved in morphogenesis] GO:0060710 [chorio-allantoic fusion] GO:0061153 [trachea gland development] GO:0070016 [armadillo repeat domain binding] GO:0070742 [C2H2 zinc finger domain binding] GO:0071345 [cellular response to cytokine stimulus] GO:0071353 [cellular response to interleukin-4] GO:0071864 [positive regulation of cell proliferation in bone marrow] GO:0071866 [negative regulation of apoptotic process in bone marrow] GO:0071895 [odontoblast differentiation] GO:0071899 [negative regulation of estrogen receptor binding] GO:0090090 [negative regulation of canonical Wnt signaling pathway] GO:1902262 [apoptotic process involved in blood vessel morphogenesis] GO:1904837 [beta-catenin-TCF complex assembly] GO:1990907 [beta-catenin-TCF complex]
Predicted intracellular proteins Plasma proteins Transcription factors Other all-alpha-helical DNA-binding domains Cancer-related genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Nonsense Mutations COSMIC Missense Mutations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding] GO:0001228 [transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding] GO:0001569 [branching involved in blood vessel morphogenesis] GO:0001649 [osteoblast differentiation] GO:0001755 [neural crest cell migration] GO:0001756 [somitogenesis] GO:0001837 [epithelial to mesenchymal transition] GO:0002040 [sprouting angiogenesis] GO:0003677 [DNA binding] GO:0003700 [transcription factor activity, sequence-specific DNA binding] GO:0003705 [transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005654 [nucleoplasm] GO:0005667 [transcription factor complex] GO:0005737 [cytoplasm] GO:0006351 [transcription, DNA-templated] GO:0006355 [regulation of transcription, DNA-templated] GO:0006357 [regulation of transcription from RNA polymerase II promoter] GO:0006366 [transcription from RNA polymerase II promoter] GO:0007223 [Wnt signaling pathway, calcium modulating pathway] GO:0008013 [beta-catenin binding] GO:0008284 [positive regulation of cell proliferation] GO:0008301 [DNA binding, bending] GO:0010628 [positive regulation of gene expression] GO:0010718 [positive regulation of epithelial to mesenchymal transition] GO:0016055 [Wnt signaling pathway] GO:0016202 [regulation of striated muscle tissue development] GO:0021542 [dentate gyrus development] GO:0021854 [hypothalamus development] GO:0021861 [forebrain radial glial cell differentiation] GO:0021873 [forebrain neuroblast division] GO:0021879 [forebrain neuron differentiation] GO:0021943 [formation of radial glial scaffolds] GO:0022407 [regulation of cell-cell adhesion] GO:0030223 [neutrophil differentiation] GO:0030284 [estrogen receptor activity] GO:0030307 [positive regulation of cell growth] GO:0030326 [embryonic limb morphogenesis] GO:0030331 [estrogen receptor binding] GO:0030335 [positive regulation of cell migration] GO:0030509 [BMP signaling pathway] GO:0030854 [positive regulation of granulocyte differentiation] GO:0030879 [mammary gland development] GO:0032696 [negative regulation of interleukin-13 production] GO:0032713 [negative regulation of interleukin-4 production] GO:0032714 [negative regulation of interleukin-5 production] GO:0032993 [protein-DNA complex] GO:0035326 [enhancer binding] GO:0042100 [B cell proliferation] GO:0042393 [histone binding] GO:0042826 [histone deacetylase binding] GO:0043027 [cysteine-type endopeptidase inhibitor activity involved in apoptotic process] GO:0043066 [negative regulation of apoptotic process] GO:0043154 [negative regulation of cysteine-type endopeptidase activity involved in apoptotic process] GO:0043392 [negative regulation of DNA binding] GO:0043401 [steroid hormone mediated signaling pathway] GO:0043565 [sequence-specific DNA binding] GO:0043923 [positive regulation by host of viral transcription] GO:0043966 [histone H3 acetylation] GO:0043967 [histone H4 acetylation] GO:0044212 [transcription regulatory region DNA binding] GO:0045063 [T-helper 1 cell differentiation] GO:0045295 [gamma-catenin binding] GO:0045892 [negative regulation of transcription, DNA-templated] GO:0045893 [positive regulation of transcription, DNA-templated] GO:0045944 [positive regulation of transcription from RNA polymerase II promoter] GO:0046632 [alpha-beta T cell differentiation] GO:0048069 [eye pigmentation] GO:0048341 [paraxial mesoderm formation] GO:0048747 [muscle fiber development] GO:0060021 [palate development] GO:0060070 [canonical Wnt signaling pathway] GO:0060325 [face morphogenesis] GO:0060326 [cell chemotaxis] GO:0060561 [apoptotic process involved in morphogenesis] GO:0060710 [chorio-allantoic fusion] GO:0061153 [trachea gland development] GO:0070016 [armadillo repeat domain binding] GO:0070742 [C2H2 zinc finger domain binding] GO:0071345 [cellular response to cytokine stimulus] GO:0071353 [cellular response to interleukin-4] GO:0071864 [positive regulation of cell proliferation in bone marrow] GO:0071866 [negative regulation of apoptotic process in bone marrow] GO:0071895 [odontoblast differentiation] GO:0071899 [negative regulation of estrogen receptor binding] GO:0090090 [negative regulation of canonical Wnt signaling pathway] GO:1904837 [beta-catenin-TCF complex assembly] GO:1990907 [beta-catenin-TCF complex]
Predicted intracellular proteins Plasma proteins Transcription factors Other all-alpha-helical DNA-binding domains Cancer-related genes COSMIC somatic mutations in cancer genes COSMIC Somatic Mutations COSMIC Nonsense Mutations COSMIC Missense Mutations Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding] GO:0001228 [transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding] GO:0001569 [branching involved in blood vessel morphogenesis] GO:0001649 [osteoblast differentiation] GO:0001755 [neural crest cell migration] GO:0001756 [somitogenesis] GO:0001837 [epithelial to mesenchymal transition] GO:0002040 [sprouting angiogenesis] GO:0003677 [DNA binding] GO:0003700 [transcription factor activity, sequence-specific DNA binding] GO:0003705 [transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005654 [nucleoplasm] GO:0005667 [transcription factor complex] GO:0005737 [cytoplasm] GO:0006351 [transcription, DNA-templated] GO:0006355 [regulation of transcription, DNA-templated] GO:0006357 [regulation of transcription from RNA polymerase II promoter] GO:0006366 [transcription from RNA polymerase II promoter] GO:0007223 [Wnt signaling pathway, calcium modulating pathway] GO:0008013 [beta-catenin binding] GO:0008284 [positive regulation of cell proliferation] GO:0008301 [DNA binding, bending] GO:0010628 [positive regulation of gene expression] GO:0010718 [positive regulation of epithelial to mesenchymal transition] GO:0016055 [Wnt signaling pathway] GO:0016202 [regulation of striated muscle tissue development] GO:0021542 [dentate gyrus development] GO:0021854 [hypothalamus development] GO:0021861 [forebrain radial glial cell differentiation] GO:0021873 [forebrain neuroblast division] GO:0021879 [forebrain neuron differentiation] GO:0021943 [formation of radial glial scaffolds] GO:0022407 [regulation of cell-cell adhesion] GO:0030223 [neutrophil differentiation] GO:0030284 [estrogen receptor activity] GO:0030307 [positive regulation of cell growth] GO:0030326 [embryonic limb morphogenesis] GO:0030331 [estrogen receptor binding] GO:0030335 [positive regulation of cell migration] GO:0030509 [BMP signaling pathway] GO:0030854 [positive regulation of granulocyte differentiation] GO:0030879 [mammary gland development] GO:0032696 [negative regulation of interleukin-13 production] GO:0032713 [negative regulation of interleukin-4 production] GO:0032714 [negative regulation of interleukin-5 production] GO:0032993 [protein-DNA complex] GO:0035326 [enhancer binding] GO:0042100 [B cell proliferation] GO:0042393 [histone binding] GO:0042826 [histone deacetylase binding] GO:0043027 [cysteine-type endopeptidase inhibitor activity involved in apoptotic process] GO:0043066 [negative regulation of apoptotic process] GO:0043154 [negative regulation of cysteine-type endopeptidase activity involved in apoptotic process] GO:0043392 [negative regulation of DNA binding] GO:0043401 [steroid hormone mediated signaling pathway] GO:0043565 [sequence-specific DNA binding] GO:0043923 [positive regulation by host of viral transcription] GO:0043966 [histone H3 acetylation] GO:0043967 [histone H4 acetylation] GO:0044212 [transcription regulatory region DNA binding] GO:0045063 [T-helper 1 cell differentiation] GO:0045295 [gamma-catenin binding] GO:0045892 [negative regulation of transcription, DNA-templated] GO:0045893 [positive regulation of transcription, DNA-templated] GO:0045944 [positive regulation of transcription from RNA polymerase II promoter] GO:0046632 [alpha-beta T cell differentiation] GO:0048069 [eye pigmentation] GO:0048341 [paraxial mesoderm formation] GO:0048747 [muscle fiber development] GO:0060021 [palate development] GO:0060070 [canonical Wnt signaling pathway] GO:0060325 [face morphogenesis] GO:0060326 [cell chemotaxis] GO:0060561 [apoptotic process involved in morphogenesis] GO:0060710 [chorio-allantoic fusion] GO:0061153 [trachea gland development] GO:0070016 [armadillo repeat domain binding] GO:0070742 [C2H2 zinc finger domain binding] GO:0071345 [cellular response to cytokine stimulus] GO:0071353 [cellular response to interleukin-4] GO:0071864 [positive regulation of cell proliferation in bone marrow] GO:0071866 [negative regulation of apoptotic process in bone marrow] GO:0071895 [odontoblast differentiation] GO:0071899 [negative regulation of estrogen receptor binding] GO:0090090 [negative regulation of canonical Wnt signaling pathway] GO:1904837 [beta-catenin-TCF complex assembly] GO:1990907 [beta-catenin-TCF complex]
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