Single cell type - TSPAN3 - The Human Protein Atlas

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.	TSPAN3
Gene descriptionⁱ Full gene name according to HGNC.	Tetraspanin 3
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,Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	6

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ 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	Intestinal epithelial cells - Unknown function (mainly)
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	Cell type enhanced (Distal enterocytes, Muller glia cells)
Immune 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	Group enriched (naive B-cell, memory B-cell, plasmacytoid DC)
Immune 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. Read more	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. Read more	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 (nTPM) 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: Cell type enhanced (Distal enterocytes, Muller glia cells)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

TSPAN3 is part of cluster 53 Intestinal epithelial cells - Unknown function with confidenceⁱ 1
611 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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
ABHD17C	Abhydrolase domain containing 17C, depalmitoylase	0.6537	53
CEACAM5	CEA cell adhesion molecule 5	0.6341	53
TTC22	Tetratricopeptide repeat domain 22	0.6332	53
GPA33	Glycoprotein A33	0.6276	53
WASL	WASP like actin nucleation promoting factor	0.6232	53
HEPH	Hephaestin	0.6215	53
LYPD8	LY6/PLAUR domain containing 8	0.6213	53
KRTAP13-2	Keratin associated protein 13-2	0.6110	53
PLS1	Plastin 1	0.6010	53
ENTPD8	Ectonucleoside triphosphate diphosphohydrolase 8	0.5968	53
CD177	CD177 molecule	0.5935	53
ITM2C	Integral membrane protein 2C	0.5915	53
MUC13	Mucin 13, cell surface associated	0.5875	53
CASP7	Caspase 7	0.5874	53
PIGZ	Phosphatidylinositol glycan anchor biosynthesis class Z	0.5855	53

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated 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 Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	76.1 nTPM
Adipose tissue	82.0 nTPM
Breast	70.2 nTPM

Alveolar cells type 1	112.2 nTPM
Lung	112.2 nTPM

Alveolar cells type 2	213.4 nTPM
Lung	213.4 nTPM

Astrocytes	69.5 nTPM
Brain	69.5 nTPM

B-cells	83.8 nTPM
Bone marrow	156.1 nTPM
Spleen	115.2 nTPM
PBMC	98.5 nTPM
Stomach	92.6 nTPM
Adipose tissue	90.2 nTPM
Lymph node	74.5 nTPM
Breast	66.9 nTPM
Liver	57.9 nTPM
Colon	43.2 nTPM
Kidney	42.9 nTPM

Dendritic cells	41.3 nTPM
PBMC	83.7 nTPM
Adipose tissue	29.0 nTPM
Breast	11.0 nTPM

Distal enterocytes	705.9 nTPM
Rectum	1012.0 nTPM
Colon	399.8 nTPM

Endothelial cells	57.6 nTPM
Prostate	102.0 nTPM
Placenta	76.2 nTPM
Endometrium	71.7 nTPM
Heart muscle	67.0 nTPM
Breast	66.2 nTPM
Liver	66.0 nTPM
Eye	58.2 nTPM
Ovary	57.1 nTPM
Esophagus	57.0 nTPM
Pancreas	50.2 nTPM
Lung	37.4 nTPM
Skeletal muscle	33.6 nTPM
Skin	32.8 nTPM
Testis	30.8 nTPM

Enteroendocrine cells	91.3 nTPM
Rectum	111.6 nTPM
Colon	71.0 nTPM

Fibroblasts	90.8 nTPM
Placenta	150.2 nTPM
Ovary	111.4 nTPM
Lung	108.4 nTPM
Breast	103.5 nTPM
Adipose tissue	98.8 nTPM
Prostate	92.6 nTPM
Heart muscle	92.0 nTPM
Stomach	77.2 nTPM
Esophagus	71.0 nTPM
Skeletal muscle	60.1 nTPM
Skin	33.8 nTPM

Intestinal goblet cells	290.4 nTPM
Rectum	325.8 nTPM
Small intestine	322.5 nTPM
Colon	223.0 nTPM

Macrophages	38.2 nTPM
Lung	78.0 nTPM
Ovary	65.1 nTPM
Pancreas	58.7 nTPM
Adipose tissue	50.5 nTPM
Breast	39.0 nTPM
Prostate	37.9 nTPM
Spleen	36.3 nTPM
Skeletal muscle	35.5 nTPM
Endometrium	35.2 nTPM
Esophagus	31.5 nTPM
Testis	29.7 nTPM
Bone marrow	25.0 nTPM
Kidney	21.9 nTPM
Stomach	14.7 nTPM
PBMC	13.6 nTPM

Paneth cells	410.7 nTPM
Colon	639.0 nTPM
Rectum	334.1 nTPM
Small intestine	259.1 nTPM

Plasma cells	81.2 nTPM
Stomach	116.7 nTPM
Esophagus	104.7 nTPM
Spleen	91.7 nTPM
Bone marrow	52.7 nTPM
Adipose tissue	40.0 nTPM

Respiratory ciliated cells	201.7 nTPM
Bronchus	211.0 nTPM
Lung	192.4 nTPM

Basal keratinocytes	34.7 nTPM
Skin	34.7 nTPM

Basal prostatic cells	77.5 nTPM
Prostate	77.5 nTPM

Basal respiratory cells	114.6 nTPM
Bronchus	114.6 nTPM

Cholangiocytes	108.7 nTPM
Liver	108.7 nTPM

Smooth muscle cells	189.0 nTPM
Bronchus	1140.6 nTPM
Heart muscle	161.2 nTPM
Adipose tissue	122.5 nTPM
Ovary	115.3 nTPM
Esophagus	114.7 nTPM
Breast	92.5 nTPM
Pancreas	79.5 nTPM
Endometrium	72.1 nTPM
Prostate	71.5 nTPM
Skeletal muscle	68.9 nTPM
Skin	39.8 nTPM

T-cells	19.4 nTPM
Lung	39.5 nTPM
Endometrium	30.8 nTPM
Prostate	28.4 nTPM
Skeletal muscle	27.8 nTPM
PBMC	26.8 nTPM
Liver	25.5 nTPM
Esophagus	19.7 nTPM
Colon	18.1 nTPM
Stomach	16.2 nTPM
Kidney	15.1 nTPM
Lymph node	14.1 nTPM
Adipose tissue	13.8 nTPM
Spleen	12.6 nTPM
Breast	12.0 nTPM
Bone marrow	11.9 nTPM
Skin	10.2 nTPM
Ovary	6.7 nTPM

Undifferentiated cells	205.2 nTPM
Small intestine	232.9 nTPM
Rectum	201.9 nTPM
Colon	181.0 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC