Immune cell - TRAJ35 - The Human Protein Atlas

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TRAJ35

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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.	TRAJ35
Gene descriptionⁱ Full gene name according to HGNC.	T cell receptor alpha joining 35 (non-functional)
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-cells - T-cell receptor (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	Group enriched (T-reg, naive CD4 T-cell, memory CD4 T-cell, naive CD8 T-cell, memory CD8 T-cell, gdT-cell, MAIT T-cell)
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: Group enriched (T-reg, naive CD4 T-cell, memory CD4 T-cell, naive CD8 T-cell, memory CD8 T-cell, gdT-cell, MAIT T-cell)
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

TRAJ35 is part of cluster 20 T-cells - T-cell receptor with confidenceⁱ 1
245 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
TRAJ38	T cell receptor alpha joining 38	0.9413	20
GLB1L3	Galactosidase beta 1 like 3	0.8937	20
TRBV14	T cell receptor beta variable 14	0.8861	20
MORC2	MORC family CW-type zinc finger 2	0.8825	20
TRAV39	T cell receptor alpha variable 39	0.8808	20
TRBV11-3	T cell receptor beta variable 11-3	0.8763	20
TRAV19	T cell receptor alpha variable 19	0.8745	20
TRAJ56	T cell receptor alpha joining 56	0.8736	20
NOS3	Nitric oxide synthase 3	0.8710	20
ITK	IL2 inducible T cell kinase	0.8701	20
CCDC85C	Coiled-coil domain containing 85C	0.8625	20
TRBV23-1	T cell receptor beta variable 23-1 (non-functional)	0.8603	20
HPCAL4	Hippocalcin like 4	0.8598	20
UBASH3A	Ubiquitin associated and SH3 domain containing A	0.8496	32
CD5	CD5 molecule	0.8389	20

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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