Single cell type - ITGA3 - The Human Protein Atlas

ITGA3

Search result

Field

Term

Cluster

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.	ITGA3
Gene descriptionⁱ Full gene name according to HGNC.	Integrin subunit alpha 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-related genes CD markers Disease related genes Human disease related genes
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.	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.	Non-specific - Mixed 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.	Cell type enhanced (Alveolar cells type 1, Ductal cells, Exocrine glandular 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.	0.58
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 (Vascular associated smooth muscle 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 (Alveolar cells type 1, Ductal cells, Exocrine glandular 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 (Vascular associated smooth muscle 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

ITGA3 is part of cluster 45 Non-specific - Mixed function with confidenceⁱ 1
349 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.
ITGB6	Integrin subunit beta 6	0.8268	45
CCND1	Cyclin D1	0.7886	45
DUOX2	Dual oxidase 2	0.7639	45
KRT7	Keratin 7	0.7407	45
ITGA2	Integrin subunit alpha 2	0.7345	45
ANXA3	Annexin A3	0.7259	45
CST6	Cystatin E/M	0.7238	45
CD151	CD151 molecule (Raph blood group)	0.7086	45
FGF19	Fibroblast growth factor 19	0.7063	45
RND1	Rho family GTPase 1	0.7062	45
LAMB3	Laminin subunit beta 3	0.6902	45
TNFRSF12A	TNF receptor superfamily member 12A	0.6874	45
CAV2	Caveolin 2	0.6821	45
KRT80	Keratin 80	0.6807	45
LAMC2	Laminin subunit gamma 2	0.6772	45

Adipocytes	9.9 nTPM
Breast	10.9 nTPM
Adipose tissue	8.9 nTPM

Alveolar cells type 1	279.9 nTPM
Lung	279.9 nTPM

Alveolar cells type 2	78.7 nTPM
Lung	78.7 nTPM

Astrocytes	3.4 nTPM
Brain	3.4 nTPM

B-cells	2.5 nTPM
Kidney	10.4 nTPM
Skin	6.8 nTPM
Adipose tissue	3.3 nTPM
Thymus	2.9 nTPM
Salivary gland	2.2 nTPM
Stomach	2.1 nTPM
Lung	1.3 nTPM
Bone marrow	1.2 nTPM
Spleen	1.0 nTPM
Lymph node	0.6 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM

Ciliated cells	41.1 nTPM
Lung	52.4 nTPM
Bronchus	44.8 nTPM
Fallopian tube	41.2 nTPM
Endometrium	26.0 nTPM

Club cells	34.4 nTPM
Lung	47.7 nTPM
Prostate	33.0 nTPM
Bronchus	22.7 nTPM

Endothelial cells	20.5 nTPM
Lung	65.8 nTPM
Pancreas	31.0 nTPM
Skin	29.0 nTPM
Testis	25.9 nTPM
Tongue	23.1 nTPM
Thymus	22.7 nTPM
Placenta	21.0 nTPM
Salivary gland	20.8 nTPM
Esophagus	18.6 nTPM
Vascular	18.4 nTPM
Fallopian tube	16.7 nTPM
Endometrium	15.9 nTPM
Ovary	15.0 nTPM
Prostate	12.1 nTPM
Liver	11.3 nTPM
Breast	10.5 nTPM
Skeletal muscle	9.2 nTPM
Heart muscle	2.7 nTPM

Enteroendocrine cells	24.4 nTPM
Small intestine	27.5 nTPM
Colon	24.0 nTPM
Rectum	21.8 nTPM

Fibroblasts	5.4 nTPM
Lung	23.6 nTPM
Pancreas	16.1 nTPM
Vascular	12.7 nTPM
Placenta	8.6 nTPM
Prostate	5.9 nTPM
Thymus	3.0 nTPM
Stomach	2.9 nTPM
Skin	2.8 nTPM
Fallopian tube	2.7 nTPM
Liver	2.4 nTPM
Breast	1.4 nTPM
Esophagus	1.3 nTPM
Salivary gland	1.2 nTPM
Skeletal muscle	1.0 nTPM
Heart muscle	0.2 nTPM
Adipose tissue	0.2 nTPM

Granulocytes	14.4 nTPM
Lung	26.7 nTPM
Tongue	9.7 nTPM
Fallopian tube	6.9 nTPM

Intestinal goblet cells	24.3 nTPM
Small intestine	33.0 nTPM
Rectum	26.0 nTPM
Colon	14.0 nTPM

Lymphatic endothelial cells	23.1 nTPM
Ovary	38.2 nTPM
Fallopian tube	8.0 nTPM

Macrophages	3.3 nTPM
Thymus	15.4 nTPM
Vascular	13.1 nTPM
Skin	8.9 nTPM
Pancreas	6.2 nTPM
Tongue	4.7 nTPM
Salivary gland	3.3 nTPM
Prostate	3.2 nTPM
Breast	2.9 nTPM
Lung	2.8 nTPM
Skeletal muscle	1.1 nTPM
Fallopian tube	0.7 nTPM
Adipose tissue	0.5 nTPM
Testis	0.0 nTPM
Kidney	0.0 nTPM
Endometrium	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	29.6 nTPM
Rectum	38.9 nTPM
Colon	36.2 nTPM
Small intestine	13.8 nTPM

Basal keratinocytes	53.1 nTPM
Skin	76.4 nTPM
Tongue	29.8 nTPM

Basal prostatic cells	23.7 nTPM
Prostate	23.7 nTPM

Basal respiratory cells	59.8 nTPM
Bronchus	59.8 nTPM

Basal squamous epithelial cells	42.5 nTPM
Esophagus	42.5 nTPM

Plasma cells	4.4 nTPM
Esophagus	10.4 nTPM
Salivary gland	5.8 nTPM
Liver	5.0 nTPM
Thymus	3.3 nTPM
Fallopian tube	3.2 nTPM
Bone marrow	3.0 nTPM
Stomach	2.9 nTPM
Spleen	1.4 nTPM

Schwann cells	3.3 nTPM
Vascular	9.4 nTPM
Adipose tissue	0.4 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	13.4 nTPM
Tongue	22.1 nTPM
Salivary gland	4.7 nTPM

Smooth muscle cells	28.1 nTPM
Vascular	51.9 nTPM
Salivary gland	51.3 nTPM
Thymus	50.8 nTPM
Prostate	34.1 nTPM
Breast	33.0 nTPM
Ovary	33.0 nTPM
Adipose tissue	31.0 nTPM
Esophagus	27.6 nTPM
Lung	27.0 nTPM
Skin	23.4 nTPM
Fallopian tube	23.0 nTPM
Endometrium	20.4 nTPM
Skeletal muscle	16.8 nTPM
Tongue	13.5 nTPM
Liver	10.2 nTPM
Placenta	2.8 nTPM

Suprabasal keratinocytes	20.0 nTPM
Skin	30.5 nTPM
Tongue	9.4 nTPM

T-cells	3.5 nTPM
Skin	9.1 nTPM
Tongue	9.0 nTPM
Lung	8.8 nTPM
Vascular	6.0 nTPM
Salivary gland	4.3 nTPM
Colon	3.9 nTPM
Breast	3.9 nTPM
Endometrium	3.5 nTPM
Adipose tissue	3.5 nTPM
Thymus	3.2 nTPM
Prostate	2.9 nTPM
Fallopian tube	2.9 nTPM
Skeletal muscle	2.6 nTPM
Liver	2.5 nTPM
Stomach	1.7 nTPM
Lymph node	1.3 nTPM
Spleen	1.3 nTPM
Bone marrow	1.2 nTPM
PBMC	1.0 nTPM
Kidney	0.9 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	23.8 nTPM
Rectum	26.1 nTPM
Small intestine	23.8 nTPM
Colon	21.6 nTPM

Amygdala excitatory	36.2 nTPM
Hypothalamus	42.6 nTPM
Hippocampus	41.0 nTPM
Amygdala	38.7 nTPM
Cerebral cortex	34.9 nTPM
Thalamus	31.3 nTPM
Basal ganglia	28.7 nTPM

Astrocyte	18.8 nTPM
Pons	30.0 nTPM
Spinal cord	25.7 nTPM
Medulla oblongata	24.5 nTPM
Midbrain	23.0 nTPM
Thalamus	19.6 nTPM
Hypothalamus	19.4 nTPM
Cerebellum	19.0 nTPM
Hippocampus	15.2 nTPM
Amygdala	10.8 nTPM
Cerebral cortex	10.5 nTPM
Basal ganglia	9.3 nTPM

Bergmann glia	10.3 nTPM
Pons	15.8 nTPM
Cerebellum	12.9 nTPM
Medulla oblongata	2.1 nTPM

Central nervous system macrophage	1.3 nTPM
Hypothalamus	2.6 nTPM
Thalamus	1.8 nTPM
Cerebral cortex	1.6 nTPM
Spinal cord	1.5 nTPM
Amygdala	1.3 nTPM
Hippocampus	1.1 nTPM
Pons	1.1 nTPM
Basal ganglia	1.0 nTPM
Cerebellum	1.0 nTPM
Medulla oblongata	1.0 nTPM
Midbrain	0.9 nTPM

Cerebellar inhibitory	34.7 nTPM
Spinal cord	44.0 nTPM
Cerebellum	40.2 nTPM
Medulla oblongata	34.2 nTPM
Midbrain	31.4 nTPM
Pons	23.4 nTPM

Cge interneuron	39.5 nTPM
Hypothalamus	62.9 nTPM
Amygdala	43.7 nTPM
Cerebral cortex	43.6 nTPM
Basal ganglia	38.5 nTPM
Hippocampus	37.6 nTPM
Midbrain	25.7 nTPM
Thalamus	24.6 nTPM

Choroid plexus epithelial cell	11.8 nTPM
Thalamus	19.2 nTPM
Medulla oblongata	14.6 nTPM
Basal ganglia	13.4 nTPM
Hippocampus	0.0 nTPM

Committed oligodendrocyte precursor	7.7 nTPM
Basal ganglia	11.0 nTPM
Spinal cord	11.0 nTPM
Thalamus	10.8 nTPM
Medulla oblongata	10.3 nTPM
Pons	9.7 nTPM
Amygdala	9.0 nTPM
Cerebral cortex	6.3 nTPM
Hippocampus	5.7 nTPM
Hypothalamus	5.5 nTPM
Cerebellum	3.2 nTPM
Midbrain	2.5 nTPM

Deep-layer corticothalamic and 6b	39.8 nTPM
Hypothalamus	51.4 nTPM
Amygdala	44.3 nTPM
Hippocampus	41.1 nTPM
Cerebral cortex	37.0 nTPM
Basal ganglia	33.0 nTPM
Midbrain	32.2 nTPM

Deep-layer intratelencephalic	40.1 nTPM
Hypothalamus	51.2 nTPM
Amygdala	45.6 nTPM
Cerebral cortex	35.7 nTPM
Hippocampus	35.7 nTPM
Basal ganglia	32.3 nTPM

Deep-layer near-projecting	46.0 nTPM
Hypothalamus	62.7 nTPM
Amygdala	53.2 nTPM
Hippocampus	41.0 nTPM
Cerebral cortex	40.1 nTPM
Basal ganglia	33.3 nTPM

Eccentric medium spiny neuron	33.2 nTPM
Hippocampus	36.5 nTPM
Cerebral cortex	34.2 nTPM
Hypothalamus	33.8 nTPM
Thalamus	33.1 nTPM
Basal ganglia	32.3 nTPM
Amygdala	29.3 nTPM

Endothelial cell	15.4 nTPM
Hypothalamus	22.3 nTPM
Cerebral cortex	21.7 nTPM
Amygdala	20.1 nTPM
Hippocampus	16.7 nTPM
Midbrain	15.1 nTPM
Pons	15.0 nTPM
Medulla oblongata	14.4 nTPM
Basal ganglia	14.0 nTPM
Spinal cord	13.8 nTPM
Thalamus	9.6 nTPM
Cerebellum	7.0 nTPM