Cell type atlas - SMC3 - The Human Protein Atlas

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SMC3

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.	SMC3
Gene descriptionⁱ Full gene name according to HGNC.	Structural maintenance of chromosomes 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Plasma proteins
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	Group enriched (Spermatogonia, Spermatocytes, Sertoli cells)
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: Group enriched (Spermatogonia, Spermatocytes, Sertoli cells)

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	75 NX
Lung	75 NX

Alveolar cells type 2	53 NX
Lung	53 NX

B-cells	61 NX
Kidney	89 NX
Colon	60 NX
Liver	38 NX

Basal glandular cells	45 NX
Prostate	45 NX

Basal keratinocytes	54 NX
Skin	54 NX

Bipolar cells	75 NX
Eye	75 NX

Cardiomyocytes	47 NX
Heart muscle	47 NX

Cholangiocytes	28 NX
Liver	28 NX

Ciliated cells	87 NX
Lung	87 NX

Club cells	73 NX
Lung	73 NX

Collecting duct cells	52 NX
Kidney	52 NX

Cone photoreceptor cells	71 NX
Eye	71 NX

Cytotrophoblasts	93 NX
Placenta	93 NX

Distal tubular cells	22 NX
Kidney	22 NX

Ductal cells	81 NX
Pancreas	81 NX

Early spermatids	37 NX
Testis	37 NX

Endothelial cells	61 NX
Pancreas	115 NX
Heart muscle	96 NX
Testis	85 NX
Placenta	64 NX
Liver	61 NX
Prostate	56 NX
Eye	56 NX
Skin	49 NX
Lung	35 NX

Enterocytes	30 NX
Small intestine	52 NX
Rectum	25 NX
Colon	17 NX

Erythroid cells	47 NX
Liver	47 NX

Exocrine glandular cells	40 NX
Pancreas	40 NX

Extravillous trophoblasts	102 NX
Placenta	102 NX

Fibroblasts	54 NX
Heart muscle	112 NX
Placenta	65 NX
Lung	51 NX
Prostate	46 NX
Skin	44 NX

Glandular cells	33 NX
Prostate	33 NX

Granulocytes	54 NX
Lung	63 NX
Colon	46 NX

Hepatocytes	25 NX
Liver	25 NX

Hofbauer cells	51 NX
Placenta	51 NX

Horizontal cells	57 NX
Eye	57 NX

Intestinal endocrine cells	39 NX
Colon	48 NX
Rectum	31 NX

Ito cells	36 NX
Liver	36 NX

Kupffer cells	34 NX
Liver	34 NX

Late spermatids	27 NX
Testis	27 NX

Leydig cells	107 NX
Testis	107 NX

Macrophages	45 NX
Testis	90 NX
Lung	60 NX
Pancreas	56 NX
Kidney	43 NX
Skin	38 NX
Prostate	33 NX

Melanocytes	35 NX
Skin	35 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	99 NX
Pancreas	99 NX

Mucus-secreting cells	35 NX
Small intestine	48 NX
Rectum	33 NX
Colon	27 NX

Muller glia cells	53 NX
Eye	53 NX

Pancreatic endocrine cells	45 NX
Pancreas	45 NX

Paneth cells	31 NX
Small intestine	140 NX
Rectum	31 NX
Colon	23 NX

Peritubular cells	107 NX
Testis	107 NX

Proximal tubular cells	25 NX
Kidney	25 NX

Rod photoreceptor cells	76 NX
Eye	76 NX

Sertoli cells	181 NX
Testis	181 NX

Smooth muscle cells	51 NX
Heart muscle	153 NX
Pancreas	67 NX
Skin	46 NX
Prostate	37 NX

Spermatocytes	507 NX
Testis	507 NX

Spermatogonia	683 NX
Testis	683 NX

Suprabasal keratinocytes	56 NX
Skin	56 NX

Syncytiotrophoblasts	41 NX
Placenta	41 NX

T-cells	65 NX
Lung	108 NX
Kidney	96 NX
Colon	90 NX
Prostate	65 NX
Skin	60 NX
Liver	59 NX

Undifferentiated cells	42 NX
Small intestine	62 NX
Colon	42 NX
Rectum	36 NX

Urothelial cells	33 NX
Prostate	33 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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