Immune cell - TRAJ50 - The Human Protein Atlas

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TRAJ50

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GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	TRAJ50
Gene descriptionⁱ Full gene name according to HGNC.	T cell receptor alpha joining 50
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location. Read more	Intracellular

IMMUNE CELL SECTION SUMMARY
Immune cell type expression clusterⁱ The RNA data is used to cluster genes according to their expression across immune cells. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity. Read more	T-regs - Unknown function (mainly)
Immune cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Immune cell enhanced (T-reg)
Immune cell type distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in many
Immune cell lineage specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: lineage enriched, group enriched, lineage enhanced, low lineage specificity and not detected. Lineages include B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells. Read more	Lineage enriched (T-cells)
Immune cell lineage distributionⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity. Read more	Detected in many

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Read more Lineage Expression Alphabetical Immune cell type specificity: Immune cell enhanced (T-reg)
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Read more Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Read more Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

TRAJ50 is part of cluster 35 T-regs - Unknown function with confidenceⁱ 1
278 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on immune cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
TRAJ29	T cell receptor alpha joining 29	0.9399	35
FOXB1	Forkhead box B1	0.9368	35
TRBJ2-5	T cell receptor beta joining 2-5	0.9364	35
PRG4	Proteoglycan 4	0.9346	35
TRAV21	T cell receptor alpha variable 21	0.9288	20
PPP1R3F	Protein phosphatase 1 regulatory subunit 3F	0.9284	35
FANK1	Fibronectin type III and ankyrin repeat domains 1	0.9275	35
TRAJ57	T cell receptor alpha joining 57	0.9266	35
TRBV7-1	T cell receptor beta variable 7-1 (non-functional)	0.9190	35
FAAH2	Fatty acid amide hydrolase 2	0.9177	35
SIRPG	Signal regulatory protein gamma	0.9083	35
MCF2L2	MCF.2 cell line derived transforming sequence-like 2	0.9061	35
ATXN7L1	Ataxin 7 like 1	0.9057	35
PLCL1	Phospholipase C like 1 (inactive)	0.9034	35
FAM149A	Family with sequence similarity 149 member A	0.9017	35

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The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.