Single cell type - TRPM3 - The Human Protein Atlas

TRPM3

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Pathway

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.	TRPM3
Gene descriptionⁱ Full gene name according to HGNC.	Transient receptor potential cation channel subfamily M member 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	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, Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	21

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.	Neurons - Neuronal signaling (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, Excitatory neurons, Inhibitory neurons, Muller glia cells, Oligodendrocyte precursor 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.	0.85
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 enriched (Choroid plexus epithelial 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.	Not detected in immune cells
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, Excitatory neurons, Inhibitory neurons, Muller glia cells, Oligodendrocyte precursor 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 enriched (Choroid plexus epithelial 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: Not detected in immune cells
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

TRPM3 is part of cluster 34 Neurons - Neuronal signaling with confidenceⁱ 1
518 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.
FMN2	Formin 2	0.9214	34
NAV3	Neuron navigator 3	0.8537	34
RYR3	Ryanodine receptor 3	0.8465	34
OR3A1	Olfactory receptor family 3 subfamily A member 1	0.8240	34
MAPK10	Mitogen-activated protein kinase 10	0.8167	34
OTOL1	Otolin 1	0.7969	34
FOXP2	Forkhead box P2	0.7962	34
ADCY2	Adenylate cyclase 2	0.7817	34
CARMIL1	Capping protein regulator and myosin 1 linker 1	0.7761	34
HS3ST4	Heparan sulfate-glucosamine 3-sulfotransferase 4	0.7697	34
ADAMTSL1	ADAMTS like 1	0.7545	34
GPM6A	Glycoprotein M6A	0.7514	47
ASIC2	Acid sensing ion channel subunit 2	0.7500	34
OR52N4	Olfactory receptor family 52 subfamily N member 4	0.7445	34
STXBP5	Syntaxin binding protein 5	0.7429	34

Adipocytes	0.3 nTPM
Breast	0.3 nTPM
Adipose tissue	0.2 nTPM

Alveolar cells type 1	0.1 nTPM
Lung	0.1 nTPM

Alveolar cells type 2	0.2 nTPM
Lung	0.2 nTPM

B-cells	0.6 nTPM
Kidney	5.2 nTPM
Skin	1.7 nTPM
Thymus	0.4 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM
Salivary gland	0.0 nTPM

Basal keratinocytes	0.3 nTPM
Tongue	0.3 nTPM
Skin	0.2 nTPM

Ciliated cells	0.6 nTPM
Endometrium	1.6 nTPM
Fallopian tube	0.6 nTPM
Bronchus	0.2 nTPM
Lung	0.0 nTPM

Club cells	0.1 nTPM
Lung	0.3 nTPM
Prostate	0.1 nTPM
Bronchus	0.0 nTPM

Endothelial cells	1.2 nTPM
Heart muscle	8.7 nTPM
Skeletal muscle	1.6 nTPM
Tongue	1.6 nTPM
Prostate	1.4 nTPM
Salivary gland	1.4 nTPM
Thymus	1.4 nTPM
Esophagus	1.3 nTPM
Ovary	1.3 nTPM
Skin	1.2 nTPM
Breast	0.9 nTPM
Vascular	0.8 nTPM
Endometrium	0.2 nTPM
Lung	0.2 nTPM
Testis	0.0 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM
Fallopian tube	0.0 nTPM

Enteroendocrine cells	3.4 nTPM
Small intestine	6.9 nTPM
Rectum	3.4 nTPM
Colon	0.0 nTPM

Fibroblasts	1.5 nTPM
Heart muscle	4.2 nTPM
Thymus	3.3 nTPM
Vascular	2.2 nTPM
Esophagus	2.0 nTPM
Prostate	2.0 nTPM
Skeletal muscle	1.6 nTPM
Stomach	1.4 nTPM
Liver	1.2 nTPM
Skin	1.2 nTPM
Salivary gland	1.0 nTPM
Adipose tissue	0.9 nTPM
Lung	0.9 nTPM
Fallopian tube	0.6 nTPM
Placenta	0.4 nTPM
Pancreas	0.4 nTPM
Breast	0.4 nTPM

Granulocytes	0.0 nTPM
Lung	0.0 nTPM
Tongue	0.0 nTPM
Fallopian tube	0.0 nTPM

Intestinal goblet cells	0.1 nTPM
Colon	0.2 nTPM
Rectum	0.1 nTPM
Small intestine	0.0 nTPM

Lymphatic endothelial cells	0.1 nTPM
Fallopian tube	0.3 nTPM
Ovary	0.0 nTPM

Macrophages	0.3 nTPM
Kidney	2.7 nTPM
Skin	1.1 nTPM
Endometrium	0.6 nTPM
Prostate	0.5 nTPM
Adipose tissue	0.4 nTPM
Skeletal muscle	0.3 nTPM
Salivary gland	0.2 nTPM
Tongue	0.2 nTPM
Vascular	0.2 nTPM
Lung	0.1 nTPM
Fallopian tube	0.1 nTPM
Testis	0.0 nTPM
Pancreas	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Thymus	0.0 nTPM
Breast	0.0 nTPM

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

Astrocytes	858.3 nTPM
Brain	858.3 nTPM

Bipolar cells	17.8 nTPM
Eye	17.8 nTPM

Cholangiocytes	7.6 nTPM
Liver	7.6 nTPM

Collecting duct cells	9.7 nTPM
Kidney	9.7 nTPM

Plasma cells	0.1 nTPM
Salivary gland	0.4 nTPM
Fallopian tube	0.3 nTPM
Thymus	0.1 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	8.3 nTPM
Vascular	13.1 nTPM
Esophagus	12.0 nTPM
Adipose tissue	0.0 nTPM

Serous glandular cells	0.3 nTPM
Salivary gland	0.5 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	1.1 nTPM
Vascular	2.9 nTPM
Skeletal muscle	2.1 nTPM
Tongue	2.1 nTPM
Skin	2.0 nTPM
Ovary	1.6 nTPM
Liver	1.3 nTPM
Endometrium	1.1 nTPM
Placenta	0.9 nTPM
Adipose tissue	0.9 nTPM
Thymus	0.9 nTPM
Fallopian tube	0.7 nTPM
Salivary gland	0.4 nTPM
Esophagus	0.0 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM
Breast	0.0 nTPM

T-cells	0.4 nTPM
Kidney	1.8 nTPM
Skin	1.4 nTPM
Colon	1.0 nTPM
Prostate	0.9 nTPM
Endometrium	0.5 nTPM
PBMC	0.4 nTPM
Skeletal muscle	0.4 nTPM
Salivary gland	0.4 nTPM
Vascular	0.4 nTPM
Liver	0.3 nTPM
Lung	0.3 nTPM
Adipose tissue	0.2 nTPM
Lymph node	0.2 nTPM
Thymus	0.1 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Tongue	0.0 nTPM
Breast	0.0 nTPM
Fallopian tube	0.0 nTPM

Undifferentiated cells	0.1 nTPM
Rectum	0.2 nTPM
Colon	0.1 nTPM
Small intestine	0.0 nTPM

Amygdala excitatory	742.4 nTPM
Amygdala	2464.6 nTPM
Cerebral cortex	606.3 nTPM
Thalamus	573.1 nTPM
Basal ganglia	312.2 nTPM
Hippocampus	283.0 nTPM
Hypothalamus	215.3 nTPM

Astrocyte	4279.1 nTPM
Midbrain	6744.6 nTPM
Thalamus	6448.8 nTPM
Cerebellum	5880.0 nTPM
Pons	5772.5 nTPM
Basal ganglia	4292.6 nTPM
Hypothalamus	3669.8 nTPM
Medulla oblongata	3536.0 nTPM
Amygdala	3493.2 nTPM
Spinal cord	2971.6 nTPM
Hippocampus	2524.5 nTPM
Cerebral cortex	1736.4 nTPM

Bergmann glia	5946.8 nTPM
Cerebellum	6365.6 nTPM
Medulla oblongata	5841.4 nTPM
Pons	5633.4 nTPM

Central nervous system macrophage	50.5 nTPM
Basal ganglia	78.0 nTPM
Medulla oblongata	71.4 nTPM
Hypothalamus	68.9 nTPM
Thalamus	53.4 nTPM
Cerebral cortex	51.8 nTPM
Amygdala	45.6 nTPM
Cerebellum	42.6 nTPM
Hippocampus	40.7 nTPM
Spinal cord	38.6 nTPM
Pons	33.4 nTPM
Midbrain	31.4 nTPM

Cerebellar inhibitory	688.5 nTPM
Spinal cord	1234.7 nTPM
Medulla oblongata	673.0 nTPM
Cerebellum	612.4 nTPM
Midbrain	543.7 nTPM
Pons	378.9 nTPM

Cge interneuron	283.8 nTPM
Amygdala	524.0 nTPM
Hypothalamus	511.2 nTPM
Hippocampus	322.1 nTPM
Cerebral cortex	226.4 nTPM
Basal ganglia	215.7 nTPM
Midbrain	121.1 nTPM
Thalamus	65.8 nTPM

Choroid plexus epithelial cell	25353.9 nTPM
Basal ganglia	38958.0 nTPM
Medulla oblongata	23247.5 nTPM
Hippocampus	20649.7 nTPM
Thalamus	18560.2 nTPM

Committed oligodendrocyte precursor	583.4 nTPM
Medulla oblongata	3187.4 nTPM
Basal ganglia	1366.6 nTPM
Pons	614.4 nTPM
Amygdala	327.6 nTPM
Thalamus	326.0 nTPM
Hippocampus	161.7 nTPM
Cerebellum	128.4 nTPM
Hypothalamus	92.9 nTPM
Cerebral cortex	81.1 nTPM
Midbrain	79.8 nTPM
Spinal cord	51.5 nTPM

Deep-layer corticothalamic and 6b	1406.5 nTPM
Hypothalamus	2359.7 nTPM
Amygdala	1532.9 nTPM
Cerebral cortex	1527.6 nTPM
Basal ganglia	1332.0 nTPM
Midbrain	1163.8 nTPM
Hippocampus	523.2 nTPM

Deep-layer intratelencephalic	192.2 nTPM
Hypothalamus	309.8 nTPM
Cerebral cortex	259.7 nTPM
Basal ganglia	171.3 nTPM
Amygdala	137.1 nTPM
Hippocampus	82.9 nTPM

Deep-layer near-projecting	75.1 nTPM
Cerebral cortex	103.0 nTPM
Amygdala	78.2 nTPM
Hypothalamus	74.1 nTPM
Hippocampus	63.4 nTPM
Basal ganglia	56.9 nTPM

Eccentric medium spiny neuron	248.5 nTPM
Amygdala	392.9 nTPM
Thalamus	322.1 nTPM
Cerebral cortex	276.7 nTPM
Hippocampus	195.6 nTPM
Basal ganglia	163.4 nTPM
Hypothalamus	140.3 nTPM

Endothelial cell	301.7 nTPM
Basal ganglia	532.2 nTPM
Hypothalamus	446.6 nTPM
Amygdala	384.5 nTPM
Cerebellum	324.4 nTPM
Pons	267.1 nTPM
Thalamus	244.6 nTPM
Midbrain	236.3 nTPM
Hippocampus	228.9 nTPM
Medulla oblongata	223.6 nTPM
Cerebral cortex	223.1 nTPM
Spinal cord	207.1 nTPM

Ependymal cell	198.0 nTPM
Amygdala	419.8 nTPM
Basal ganglia	368.1 nTPM
Midbrain	229.2 nTPM
Thalamus	211.0 nTPM
Hypothalamus	175.8 nTPM
Medulla oblongata	158.3 nTPM
Spinal cord	90.1 nTPM
Hippocampus	73.7 nTPM
Pons	56.6 nTPM