Single cell type - KCNN3 - The Human Protein Atlas

KCNN3

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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.	KCNN3
Gene descriptionⁱ Full gene name according to HGNC.	Potassium calcium-activated channel subfamily N member 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes FDA approved drug targets Human disease related genes Transporters Voltage-gated ion channels
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.	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

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.	Lymphatic endothelial cells - Lymph vessel development (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.	Cell type enhanced (Astrocytes, Skeletal myocytes, Lymphatic endothelial cells, Plasma cells, Ciliated cells)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.83
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	Cell type enhanced (Astrocyte, Ependymal cell)
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.	Immune cell enhanced (basophil, memory B-cell)
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized 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 RNA single cell type specificity: Cell type enhanced (Astrocytes, Skeletal myocytes, Lymphatic endothelial cells, Plasma cells, Ciliated cells)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Cell type enhanced (Astrocyte, Ependymal cell)

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). Lineage Expression Alphabetical Immune cell type specificity: Immune cell enhanced (basophil, memory B-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. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

KCNN3 is part of cluster 54 Lymphatic endothelial cells - Lymph vessel development with confidenceⁱ 1
108 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
RHOJ	Ras homolog family member J	0.7554	54
LHFPL1	LHFPL tetraspan subfamily member 1	0.5818	54
LRRC70	Leucine rich repeat containing 70	0.5738	54
ENTREP1	Endosomal transmembrane epsin interactor 1	0.5611	47
ZNF521	Zinc finger protein 521	0.5531	76
THSD1	Thrombospondin type 1 domain containing 1	0.5475	54
CACHD1	Cache domain containing 1	0.5472	47
STON2	Stonin 2	0.5459	47
PLSCR4	Phospholipid scramblase 4	0.5390	54
CCL21	C-C motif chemokine ligand 21	0.5377	54
ECSCR	Endothelial cell surface expressed chemotaxis and apoptosis regulator	0.5362	54
GDF3	Growth differentiation factor 3	0.5276	54
CSGALNACT1	Chondroitin sulfate N-acetylgalactosaminyltransferase 1	0.5270	34
MMRN1	Multimerin 1	0.5233	54
DIPK2B	Divergent protein kinase domain 2B	0.5182	54

IMMUNE CELLS

KCNN3 is part of cluster 23 B-cells - Immunoglobulins with confidenceⁱ 0.48
208 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SCAF4	SR-related CTD associated factor 4	0.9762	14
ZMIZ2	Zinc finger MIZ-type containing 2	0.9524	32
NRAS	NRAS proto-oncogene, GTPase	0.9286	5
RBM41	RNA binding motif protein 41	0.9048	5
SLC50A1	Solute carrier family 50 member 1	0.9048	32
FANCC	FA complementation group C	0.9048	32
ACSS1	Acyl-CoA synthetase short chain family member 1	0.9048	32
DENND11	DENN domain containing 11	0.8810	14
TRIP13	Thyroid hormone receptor interactor 13	0.8810	23
APOM	Apolipoprotein M	0.8810	32
OPA1	OPA1 mitochondrial dynamin like GTPase	0.8810	23
ZCCHC10	Zinc finger CCHC-type containing 10	0.8810	23
FSD1L	Fibronectin type III and SPRY domain containing 1 like	0.8810	23
TEX9	Testis expressed 9	0.8571	32
PLAAT2	Phospholipase A and acyltransferase 2	0.8571	17

Adipocytes	7.8 nTPM
Adipose tissue	8.5 nTPM
Breast	7.1 nTPM

Alveolar cells type 1	7.8 nTPM
Lung	7.8 nTPM

Alveolar cells type 2	0.3 nTPM
Lung	0.3 nTPM

B-cells	0.9 nTPM
Adipose tissue	4.5 nTPM
Lung	2.7 nTPM
Skin	1.7 nTPM
PBMC	1.5 nTPM
Thymus	0.9 nTPM
Salivary gland	0.5 nTPM
Lymph node	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Basal keratinocytes	0.8 nTPM
Tongue	0.9 nTPM
Skin	0.6 nTPM

Ciliated cells	28.9 nTPM
Lung	47.8 nTPM
Fallopian tube	37.8 nTPM
Endometrium	28.2 nTPM
Bronchus	1.6 nTPM

Club cells	0.3 nTPM
Bronchus	0.4 nTPM
Prostate	0.4 nTPM
Lung	0.1 nTPM

Endothelial cells	22.1 nTPM
Prostate	47.8 nTPM
Salivary gland	39.6 nTPM
Breast	37.8 nTPM
Ovary	32.1 nTPM
Tongue	28.9 nTPM
Fallopian tube	28.9 nTPM
Vascular	24.0 nTPM
Heart muscle	20.9 nTPM
Thymus	18.3 nTPM
Pancreas	18.1 nTPM
Skin	17.9 nTPM
Esophagus	17.8 nTPM
Testis	17.7 nTPM
Skeletal muscle	17.3 nTPM
Endometrium	9.4 nTPM
Lung	9.1 nTPM
Placenta	7.9 nTPM
Liver	3.8 nTPM

Enteroendocrine cells	1.1 nTPM
Rectum	3.4 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Fibroblasts	11.8 nTPM
Esophagus	122.9 nTPM
Stomach	14.4 nTPM
Heart muscle	13.3 nTPM
Fallopian tube	11.5 nTPM
Skin	5.5 nTPM
Lung	5.5 nTPM
Skeletal muscle	5.4 nTPM
Liver	3.6 nTPM
Vascular	2.1 nTPM
Prostate	1.3 nTPM
Breast	1.3 nTPM
Placenta	0.6 nTPM
Pancreas	0.6 nTPM
Thymus	0.6 nTPM
Adipose tissue	0.3 nTPM
Salivary gland	0.3 nTPM

Granulocytes	0.4 nTPM
Fallopian tube	1.3 nTPM
Lung	0.0 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Lymphatic endothelial cells	51.8 nTPM
Fallopian tube	81.9 nTPM
Ovary	21.8 nTPM

Macrophages	0.7 nTPM
Esophagus	3.9 nTPM
Breast	2.8 nTPM
Pancreas	2.1 nTPM
Skeletal muscle	1.3 nTPM
Thymus	1.2 nTPM
Skin	1.1 nTPM
Fallopian tube	1.0 nTPM
Salivary gland	0.3 nTPM
Adipose tissue	0.2 nTPM
Lung	0.2 nTPM
Prostate	0.2 nTPM
Vascular	0.1 nTPM
Testis	0.0 nTPM
Kidney	0.0 nTPM
Endometrium	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Tongue	0.0 nTPM

Paneth cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Astrocytes	160.1 nTPM
Brain	160.1 nTPM

Early spermatids	3.5 nTPM
Testis	3.5 nTPM

Plasma cells	40.5 nTPM
Salivary gland	80.1 nTPM
Stomach	51.1 nTPM
Thymus	39.6 nTPM
Fallopian tube	37.3 nTPM
Esophagus	36.4 nTPM
Liver	33.5 nTPM
Bone marrow	24.2 nTPM
Spleen	21.9 nTPM

Schwann cells	1.0 nTPM
Vascular	2.6 nTPM
Adipose tissue	0.4 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	0.1 nTPM
Salivary gland	0.2 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	2.1 nTPM
Liver	12.7 nTPM
Skeletal muscle	6.0 nTPM
Tongue	3.6 nTPM
Fallopian tube	3.0 nTPM
Esophagus	2.4 nTPM
Prostate	1.2 nTPM
Breast	1.1 nTPM
Endometrium	0.9 nTPM
Skin	0.7 nTPM
Ovary	0.7 nTPM
Vascular	0.6 nTPM
Thymus	0.3 nTPM
Placenta	0.2 nTPM
Adipose tissue	0.2 nTPM
Lung	0.0 nTPM
Salivary gland	0.0 nTPM

T-cells	0.5 nTPM
Skeletal muscle	5.3 nTPM
Endometrium	0.7 nTPM
Breast	0.6 nTPM
Lung	0.5 nTPM
Prostate	0.5 nTPM
Fallopian tube	0.5 nTPM
Skin	0.4 nTPM
Vascular	0.4 nTPM
Salivary gland	0.2 nTPM
Tongue	0.2 nTPM
Adipose tissue	0.1 nTPM
Stomach	0.1 nTPM
Thymus	0.1 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Undifferentiated cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Amygdala excitatory	181.0 nTPM
Hypothalamus	312.7 nTPM
Hippocampus	204.6 nTPM
Amygdala	197.4 nTPM
Cerebral cortex	165.6 nTPM
Basal ganglia	125.2 nTPM
Thalamus	80.8 nTPM

Astrocyte	617.3 nTPM
Amygdala	812.2 nTPM
Midbrain	732.3 nTPM
Cerebellum	731.9 nTPM
Pons	659.0 nTPM
Hippocampus	654.3 nTPM
Thalamus	635.9 nTPM
Basal ganglia	581.8 nTPM
Hypothalamus	580.6 nTPM
Spinal cord	473.6 nTPM
Cerebral cortex	466.9 nTPM
Medulla oblongata	462.3 nTPM

Bergmann glia	184.2 nTPM
Cerebellum	197.3 nTPM
Pons	182.7 nTPM
Medulla oblongata	172.6 nTPM

Central nervous system macrophage	4.3 nTPM
Spinal cord	7.4 nTPM
Amygdala	5.4 nTPM
Hypothalamus	4.9 nTPM
Hippocampus	4.8 nTPM
Basal ganglia	4.4 nTPM
Thalamus	4.1 nTPM
Cerebellum	4.0 nTPM
Cerebral cortex	3.8 nTPM
Midbrain	3.4 nTPM
Medulla oblongata	2.6 nTPM
Pons	2.5 nTPM

Cerebellar inhibitory	19.8 nTPM
Medulla oblongata	33.0 nTPM
Midbrain	30.5 nTPM
Pons	18.2 nTPM
Cerebellum	17.6 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	53.5 nTPM
Hypothalamus	76.4 nTPM
Amygdala	58.3 nTPM
Basal ganglia	53.2 nTPM
Midbrain	52.4 nTPM
Thalamus	50.2 nTPM
Hippocampus	42.2 nTPM
Cerebral cortex	41.4 nTPM

Choroid plexus epithelial cell	52.4 nTPM
Basal ganglia	91.2 nTPM
Thalamus	71.2 nTPM
Medulla oblongata	33.3 nTPM
Hippocampus	13.9 nTPM

Committed oligodendrocyte precursor	19.0 nTPM
Basal ganglia	43.8 nTPM
Thalamus	37.1 nTPM
Amygdala	21.4 nTPM
Hypothalamus	19.8 nTPM
Cerebellum	17.4 nTPM
Pons	16.8 nTPM
Medulla oblongata	12.9 nTPM
Hippocampus	11.1 nTPM
Spinal cord	11.0 nTPM
Midbrain	10.1 nTPM
Cerebral cortex	7.6 nTPM

Deep-layer corticothalamic and 6b	44.0 nTPM
Hypothalamus	87.6 nTPM
Amygdala	56.8 nTPM
Basal ganglia	40.2 nTPM
Cerebral cortex	35.2 nTPM
Hippocampus	30.0 nTPM
Midbrain	14.4 nTPM

Deep-layer intratelencephalic	87.9 nTPM
Hypothalamus	132.2 nTPM
Hippocampus	118.5 nTPM
Amygdala	105.5 nTPM
Basal ganglia	43.4 nTPM
Cerebral cortex	40.0 nTPM

Deep-layer near-projecting	11.3 nTPM
Hypothalamus	22.0 nTPM
Amygdala	12.5 nTPM
Basal ganglia	10.0 nTPM
Cerebral cortex	6.8 nTPM
Hippocampus	5.2 nTPM

Eccentric medium spiny neuron	215.1 nTPM
Hypothalamus	281.7 nTPM
Amygdala	225.6 nTPM
Thalamus	211.6 nTPM
Cerebral cortex	204.8 nTPM
Hippocampus	185.7 nTPM
Basal ganglia	181.2 nTPM

Endothelial cell	23.2 nTPM
Basal ganglia	65.2 nTPM
Hypothalamus	39.7 nTPM
Amygdala	27.9 nTPM
Cerebral cortex	27.5 nTPM
Medulla oblongata	21.5 nTPM
Hippocampus	16.7 nTPM
Pons	15.6 nTPM
Thalamus	13.6 nTPM
Cerebellum	10.8 nTPM
Spinal cord	8.6 nTPM
Midbrain	7.6 nTPM

Ependymal cell	350.8 nTPM
Basal ganglia	502.0 nTPM
Amygdala	448.2 nTPM
Hypothalamus	417.6 nTPM
Hippocampus	381.0 nTPM
Midbrain	316.8 nTPM
Thalamus	309.8 nTPM
Pons	271.5 nTPM
Spinal cord	264.5 nTPM
Medulla oblongata	246.1 nTPM