Cell type atlas - SEC13 - The Human Protein Atlas

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SEC13

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.	SEC13
Gene descriptionⁱ Full gene name according to HGNC.	SEC13 homolog, nuclear pore and COPII coat complex component
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Transporters
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.	9

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	45 NX
Lung	45 NX

Alveolar cells type 2	52 NX
Lung	52 NX

B-cells	27 NX
Liver	90 NX
Colon	27 NX
Kidney	27 NX

Basal glandular cells	45 NX
Prostate	45 NX

Basal keratinocytes	35 NX
Skin	35 NX

Bipolar cells	15 NX
Eye	15 NX

Cardiomyocytes	37 NX
Heart muscle	37 NX

Cholangiocytes	18 NX
Liver	18 NX

Ciliated cells	72 NX
Lung	72 NX

Club cells	48 NX
Lung	48 NX

Collecting duct cells	26 NX
Kidney	26 NX

Cone photoreceptor cells	10 NX
Eye	10 NX

Cytotrophoblasts	98 NX
Placenta	98 NX

Distal tubular cells	56 NX
Kidney	56 NX

Ductal cells	70 NX
Pancreas	70 NX

Early spermatids	20 NX
Testis	20 NX

Endothelial cells	34 NX
Pancreas	122 NX
Placenta	75 NX
Lung	64 NX
Prostate	48 NX
Heart muscle	41 NX
Testis	33 NX
Eye	31 NX
Skin	30 NX
Liver	27 NX

Enterocytes	64 NX
Small intestine	151 NX
Rectum	60 NX
Colon	54 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	96 NX
Pancreas	96 NX

Extravillous trophoblasts	136 NX
Placenta	136 NX

Fibroblasts	67 NX
Placenta	130 NX
Lung	78 NX
Prostate	64 NX
Heart muscle	59 NX
Skin	55 NX

Glandular cells	49 NX
Prostate	49 NX

Granulocytes	42 NX
Lung	47 NX
Colon	37 NX

Hepatocytes	54 NX
Liver	54 NX

Hofbauer cells	94 NX
Placenta	94 NX

Horizontal cells	11 NX
Eye	11 NX

Intestinal endocrine cells	40 NX
Rectum	42 NX
Colon	37 NX

Ito cells	37 NX
Liver	37 NX

Kupffer cells	34 NX
Liver	34 NX

Late spermatids	7 NX
Testis	7 NX

Leydig cells	50 NX
Testis	50 NX

Macrophages	49 NX
Pancreas	66 NX
Lung	60 NX
Prostate	51 NX
Kidney	48 NX
Skin	42 NX
Testis	40 NX

Melanocytes	25 NX
Skin	25 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	68 NX
Pancreas	68 NX

Mucus-secreting cells	76 NX
Colon	146 NX
Small intestine	76 NX
Rectum	67 NX

Muller glia cells	31 NX
Eye	31 NX

Pancreatic endocrine cells	74 NX
Pancreas	74 NX

Paneth cells	53 NX
Small intestine	56 NX
Rectum	53 NX
Colon	43 NX

Peritubular cells	50 NX
Testis	50 NX

Proximal tubular cells	72 NX
Kidney	72 NX

Rod photoreceptor cells	20 NX
Eye	20 NX

Sertoli cells	13 NX
Testis	13 NX

Smooth muscle cells	43 NX
Pancreas	201 NX
Prostate	44 NX
Skin	38 NX
Heart muscle	28 NX

Spermatocytes	42 NX
Testis	42 NX

Spermatogonia	37 NX
Testis	37 NX

Suprabasal keratinocytes	35 NX
Skin	35 NX

Syncytiotrophoblasts	141 NX
Placenta	141 NX

T-cells	40 NX
Lung	56 NX
Liver	43 NX
Kidney	40 NX
Prostate	35 NX
Skin	31 NX
Colon	30 NX

Undifferentiated cells	68 NX
Small intestine	69 NX
Rectum	58 NX
Colon	57 NX

Urothelial cells	50 NX
Prostate	50 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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