Cell type atlas - RTCB - The Human Protein Atlas

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RTCB

SUMMARY

TISSUE

CELL TYPE

PATHOLOGY

BRAIN

BLOOD

CELL

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.	RTCB
Gene descriptionⁱ Full gene name according to HGNC.	RNA 2',3'-cyclic phosphate and 5'-OH ligase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes
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
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	1

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Low cell type specificity
Blood cell 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	Low cell type specificity
Blood cell 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 all
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines.	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines.	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of single cell RNA (NX) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types Group Expression Alphabetical RNA single cell type specificity: Low cell type specificity

SINGLE CELL TISSUESⁱ Single cell RNA in cell types from tissue are shown separately for each analyzed tissue. For easier navigation across tissues, use the grey browser on the left side of the window. Barchart shows pTPM levels in each cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ RNA expression data (NX) of tissue culture cell lines.The analyzed cell lines are divided into 16 color-coded groups according to the organ they were obtained from. Detailed information about a specific cell line is revealed by hovering over the corresponding bar in the chart. The chart is clickable and redirects to more Cell Atlas data. Read more
Organ Expression Alphabetical

Alveolar cells type 1	30 NX
Lung	30 NX

Alveolar cells type 2	30 NX
Lung	30 NX

B-cells	40 NX
Kidney	40 NX
Colon	40 NX
Liver	29 NX

Basal glandular cells	49 NX
Prostate	49 NX

Basal keratinocytes	54 NX
Skin	54 NX

Bipolar cells	51 NX
Eye	51 NX

Cardiomyocytes	32 NX
Heart muscle	32 NX

Cholangiocytes	48 NX
Liver	48 NX

Ciliated cells	38 NX
Lung	38 NX

Club cells	23 NX
Lung	23 NX

Collecting duct cells	33 NX
Kidney	33 NX

Cone photoreceptor cells	20 NX
Eye	20 NX

Cytotrophoblasts	99 NX
Placenta	99 NX

Distal tubular cells	56 NX
Kidney	56 NX

Ductal cells	89 NX
Pancreas	89 NX

Early spermatids	4 NX
Testis	4 NX

Endothelial cells	38 NX
Pancreas	107 NX
Placenta	53 NX
Eye	49 NX
Testis	45 NX
Prostate	41 NX
Skin	35 NX
Liver	32 NX
Lung	23 NX
Heart muscle	21 NX

Enterocytes	93 NX
Small intestine	152 NX
Colon	65 NX
Rectum	63 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	84 NX
Pancreas	84 NX

Extravillous trophoblasts	75 NX
Placenta	75 NX

Fibroblasts	40 NX
Placenta	51 NX
Prostate	47 NX
Skin	34 NX
Lung	25 NX
Heart muscle	14 NX

Glandular cells	51 NX
Prostate	51 NX

Granulocytes	43 NX
Colon	64 NX
Lung	21 NX

Hepatocytes	55 NX
Liver	55 NX

Hofbauer cells	75 NX
Placenta	75 NX

Horizontal cells	49 NX
Eye	49 NX

Intestinal endocrine cells	45 NX
Colon	48 NX
Rectum	42 NX

Ito cells	35 NX
Liver	35 NX

Kupffer cells	42 NX
Liver	42 NX

Late spermatids	7 NX
Testis	7 NX

Leydig cells	33 NX
Testis	33 NX

Macrophages	40 NX
Pancreas	73 NX
Testis	46 NX
Skin	40 NX
Kidney	38 NX
Prostate	37 NX
Lung	37 NX

Melanocytes	29 NX
Skin	29 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	107 NX
Pancreas	107 NX

Mucus-secreting cells	50 NX
Small intestine	75 NX
Colon	50 NX
Rectum	47 NX

Muller glia cells	61 NX
Eye	61 NX

Pancreatic endocrine cells	82 NX
Pancreas	82 NX

Paneth cells	60 NX
Small intestine	63 NX
Rectum	60 NX
Colon	46 NX

Peritubular cells	45 NX
Testis	45 NX

Proximal tubular cells	109 NX
Kidney	109 NX

Rod photoreceptor cells	48 NX
Eye	48 NX

Sertoli cells	26 NX
Testis	26 NX

Smooth muscle cells	37 NX
Pancreas	91 NX
Heart muscle	44 NX
Prostate	37 NX
Skin	33 NX

Spermatocytes	57 NX
Testis	57 NX

Spermatogonia	59 NX
Testis	59 NX

Suprabasal keratinocytes	67 NX
Skin	67 NX

Syncytiotrophoblasts	82 NX
Placenta	82 NX

T-cells	31 NX
Kidney	50 NX
Prostate	44 NX
Skin	40 NX
Liver	31 NX
Colon	27 NX
Lung	22 NX

Undifferentiated cells	51 NX
Colon	63 NX
Small intestine	56 NX
Rectum	50 NX

Urothelial cells	61 NX
Prostate	61 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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