Single cell type - ZRANB3 - The Human Protein Atlas

ZRANB3

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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.	ZRANB3
Gene descriptionⁱ Full gene name according to HGNC.	Zinc finger RANBP2-type containing 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-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.	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.	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 (Excitatory neurons, Oligodendrocytes, Inhibitory neurons, Astrocytes)
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.	0.63
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.	Low cell type specificity
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 (Excitatory neurons, Oligodendrocytes, Inhibitory neurons, Astrocytes)

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: Low cell type specificity

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

ZRANB3 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.
SCAI	Suppressor of cancer cell invasion	0.7103	34
ISY1-RAB43	ISY1-RAB43 readthrough	0.6950	34
BTBD9	BTB domain containing 9	0.6932	34
SIPA1L1	Signal induced proliferation associated 1 like 1	0.6768	34
CACNA2D1	Calcium voltage-gated channel auxiliary subunit alpha2delta 1	0.6701	65
CACNG3	Calcium voltage-gated channel auxiliary subunit gamma 3	0.6694	65
GPR63	G protein-coupled receptor 63	0.6598	65
FAM81A	Family with sequence similarity 81 member A	0.6536	65
ZNF804B	Zinc finger protein 804B	0.6493	34
PVALEF	Parvalbumin like EF-hand containing	0.6491	51
KCNH1	Potassium voltage-gated channel subfamily H member 1	0.6443	34
KCNN2	Potassium calcium-activated channel subfamily N member 2	0.6425	65
NWD2	NACHT and WD repeat domain containing 2	0.6335	34
A3GALT2	Alpha 1,3-galactosyltransferase 2	0.6275	65
ADGRL2	Adhesion G protein-coupled receptor L2	0.6255	34

Adipocytes	1.2 nTPM
Breast	1.4 nTPM
Adipose tissue	1.0 nTPM

Alveolar cells type 1	2.3 nTPM
Lung	2.3 nTPM

Alveolar cells type 2	2.7 nTPM
Lung	2.7 nTPM

B-cells	6.4 nTPM
Bone marrow	15.7 nTPM
Kidney	10.4 nTPM
Lymph node	8.4 nTPM
Spleen	8.4 nTPM
Salivary gland	8.1 nTPM
Esophagus	5.9 nTPM
Adipose tissue	5.8 nTPM
Stomach	5.1 nTPM
Liver	4.8 nTPM
Lung	4.0 nTPM
Thymus	3.7 nTPM
Skin	3.4 nTPM
PBMC	0.0 nTPM

Basal keratinocytes	2.4 nTPM
Tongue	3.7 nTPM
Skin	1.2 nTPM

Ciliated cells	2.5 nTPM
Fallopian tube	3.0 nTPM
Endometrium	2.7 nTPM
Lung	2.4 nTPM
Bronchus	2.1 nTPM

Club cells	3.2 nTPM
Bronchus	3.4 nTPM
Prostate	3.3 nTPM
Lung	2.9 nTPM

Endothelial cells	1.7 nTPM
Ovary	3.5 nTPM
Esophagus	3.1 nTPM
Lung	2.8 nTPM
Tongue	2.8 nTPM
Endometrium	2.4 nTPM
Thymus	2.3 nTPM
Prostate	2.2 nTPM
Fallopian tube	2.2 nTPM
Skeletal muscle	2.0 nTPM
Skin	1.9 nTPM
Vascular	1.8 nTPM
Placenta	1.1 nTPM
Salivary gland	1.0 nTPM
Testis	0.9 nTPM
Breast	0.9 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	1.0 nTPM
Colon	3.1 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	3.7 nTPM
Heart muscle	6.3 nTPM
Placenta	6.0 nTPM
Stomach	5.8 nTPM
Esophagus	5.1 nTPM
Vascular	4.4 nTPM
Lung	4.1 nTPM
Salivary gland	4.1 nTPM
Fallopian tube	3.9 nTPM
Thymus	3.6 nTPM
Skeletal muscle	3.2 nTPM
Adipose tissue	3.1 nTPM
Pancreas	2.7 nTPM
Breast	2.5 nTPM
Prostate	2.0 nTPM
Skin	1.7 nTPM
Liver	0.0 nTPM

Granulocytes	3.8 nTPM
Tongue	4.9 nTPM
Lung	3.5 nTPM
Fallopian tube	2.9 nTPM

Intestinal goblet cells	1.7 nTPM
Colon	2.7 nTPM
Rectum	2.1 nTPM
Small intestine	0.2 nTPM

Lymphatic endothelial cells	1.2 nTPM
Fallopian tube	2.4 nTPM
Ovary	0.0 nTPM

Macrophages	2.1 nTPM
Prostate	3.8 nTPM
Kidney	3.5 nTPM
Tongue	3.5 nTPM
Breast	2.9 nTPM
Esophagus	2.6 nTPM
Stomach	2.6 nTPM
Skeletal muscle	2.5 nTPM
Skin	2.2 nTPM
Adipose tissue	2.2 nTPM
Salivary gland	2.1 nTPM
Thymus	2.1 nTPM
Spleen	2.0 nTPM
Endometrium	1.8 nTPM
Lung	1.6 nTPM
Fallopian tube	1.6 nTPM
Vascular	1.5 nTPM
Bone marrow	1.0 nTPM
Testis	0.0 nTPM
Pancreas	0.0 nTPM

Paneth cells	2.8 nTPM
Colon	3.6 nTPM
Small intestine	3.5 nTPM
Rectum	1.5 nTPM

Astrocytes	33.1 nTPM
Brain	33.1 nTPM

Bipolar cells	4.7 nTPM
Eye	4.7 nTPM

Distal enterocytes	0.7 nTPM
Colon	0.8 nTPM
Rectum	0.5 nTPM

Early spermatids	19.1 nTPM
Testis	19.1 nTPM

Plasma cells	4.1 nTPM
Spleen	6.5 nTPM
Thymus	6.4 nTPM
Esophagus	5.2 nTPM
Liver	4.5 nTPM
Stomach	3.4 nTPM
Bone marrow	3.0 nTPM
Fallopian tube	2.6 nTPM
Salivary gland	1.3 nTPM

Schwann cells	2.5 nTPM
Adipose tissue	3.9 nTPM
Vascular	3.7 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	1.0 nTPM
Salivary gland	1.9 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	3.5 nTPM
Endometrium	7.2 nTPM
Adipose tissue	5.3 nTPM
Tongue	4.5 nTPM
Placenta	4.3 nTPM
Breast	4.0 nTPM
Ovary	4.0 nTPM
Thymus	3.7 nTPM
Lung	3.5 nTPM
Vascular	3.3 nTPM
Fallopian tube	3.2 nTPM
Salivary gland	3.1 nTPM
Esophagus	2.4 nTPM
Prostate	2.4 nTPM
Skeletal muscle	1.9 nTPM
Skin	1.4 nTPM
Liver	1.3 nTPM

T-cells	4.1 nTPM
Lymph node	8.5 nTPM
Stomach	7.4 nTPM
Esophagus	7.3 nTPM
PBMC	7.0 nTPM
Salivary gland	6.1 nTPM
Spleen	4.8 nTPM
Bone marrow	4.4 nTPM
Liver	3.9 nTPM
Endometrium	3.9 nTPM
Thymus	3.9 nTPM
Prostate	3.7 nTPM
Kidney	3.5 nTPM
Lung	3.2 nTPM
Colon	2.9 nTPM
Tongue	2.7 nTPM
Vascular	2.4 nTPM
Breast	2.4 nTPM
Skeletal muscle	2.3 nTPM
Adipose tissue	2.2 nTPM
Skin	2.1 nTPM
Fallopian tube	2.1 nTPM

Undifferentiated cells	4.5 nTPM
Colon	5.0 nTPM
Small intestine	4.5 nTPM
Rectum	4.0 nTPM

Amygdala excitatory	159.5 nTPM
Hypothalamus	186.5 nTPM
Cerebral cortex	182.0 nTPM
Amygdala	174.1 nTPM
Hippocampus	158.3 nTPM
Basal ganglia	147.3 nTPM
Thalamus	108.9 nTPM

Astrocyte	97.6 nTPM
Hypothalamus	135.5 nTPM
Amygdala	129.5 nTPM
Basal ganglia	103.2 nTPM
Hippocampus	99.2 nTPM
Thalamus	97.1 nTPM
Midbrain	94.0 nTPM
Cerebral cortex	91.1 nTPM
Medulla oblongata	91.0 nTPM
Pons	85.0 nTPM
Cerebellum	74.2 nTPM
Spinal cord	74.1 nTPM

Bergmann glia	110.9 nTPM
Medulla oblongata	134.3 nTPM
Cerebellum	113.7 nTPM
Pons	84.9 nTPM

Central nervous system macrophage	77.4 nTPM
Hypothalamus	111.6 nTPM
Amygdala	89.6 nTPM
Basal ganglia	87.1 nTPM
Thalamus	80.0 nTPM
Medulla oblongata	78.7 nTPM
Cerebral cortex	72.9 nTPM
Midbrain	69.6 nTPM
Pons	68.6 nTPM
Hippocampus	66.7 nTPM
Spinal cord	63.3 nTPM
Cerebellum	63.2 nTPM

Cerebellar inhibitory	89.6 nTPM
Medulla oblongata	100.0 nTPM
Midbrain	93.3 nTPM
Cerebellum	88.0 nTPM
Spinal cord	85.2 nTPM
Pons	81.6 nTPM

Cge interneuron	90.9 nTPM
Amygdala	101.3 nTPM
Midbrain	97.7 nTPM
Thalamus	95.0 nTPM
Hypothalamus	91.7 nTPM
Basal ganglia	85.2 nTPM
Hippocampus	84.8 nTPM
Cerebral cortex	80.5 nTPM

Choroid plexus epithelial cell	92.2 nTPM
Medulla oblongata	118.7 nTPM
Basal ganglia	106.8 nTPM
Hippocampus	77.7 nTPM
Thalamus	65.8 nTPM

Committed oligodendrocyte precursor	91.1 nTPM
Hypothalamus	135.9 nTPM
Cerebral cortex	109.6 nTPM
Thalamus	106.7 nTPM
Amygdala	106.0 nTPM
Medulla oblongata	98.1 nTPM
Hippocampus	87.7 nTPM
Midbrain	82.3 nTPM
Basal ganglia	79.9 nTPM
Cerebellum	79.3 nTPM
Pons	76.1 nTPM
Spinal cord	40.5 nTPM

Deep-layer corticothalamic and 6b	122.7 nTPM
Amygdala	137.8 nTPM
Basal ganglia	128.4 nTPM
Hypothalamus	125.3 nTPM
Cerebral cortex	124.3 nTPM
Midbrain	113.2 nTPM
Hippocampus	107.2 nTPM

Deep-layer intratelencephalic	150.6 nTPM
Amygdala	163.1 nTPM
Hypothalamus	160.2 nTPM
Basal ganglia	152.5 nTPM
Hippocampus	148.0 nTPM
Cerebral cortex	129.4 nTPM

Deep-layer near-projecting	86.5 nTPM
Amygdala	99.9 nTPM
Hippocampus	87.8 nTPM
Basal ganglia	83.0 nTPM
Cerebral cortex	82.4 nTPM
Hypothalamus	79.2 nTPM

Eccentric medium spiny neuron	128.2 nTPM
Amygdala	136.3 nTPM
Basal ganglia	133.9 nTPM
Thalamus	130.3 nTPM
Hippocampus	129.3 nTPM
Cerebral cortex	124.7 nTPM
Hypothalamus	114.6 nTPM

Endothelial cell	59.1 nTPM
Hypothalamus	98.0 nTPM
Spinal cord	72.5 nTPM
Hippocampus	67.3 nTPM
Thalamus	61.0 nTPM
Cerebral cortex	58.2 nTPM
Midbrain	54.8 nTPM
Cerebellum	54.2 nTPM
Pons	52.4 nTPM
Basal ganglia	52.2 nTPM
Medulla oblongata	44.1 nTPM
Amygdala	35.8 nTPM

Ependymal cell	77.7 nTPM
Hypothalamus	122.3 nTPM
Amygdala	89.9 nTPM
Hippocampus	80.1 nTPM
Basal ganglia	75.6 nTPM
Midbrain	73.6 nTPM
Thalamus	72.9 nTPM
Medulla oblongata	65.2 nTPM
Pons	60.5 nTPM
Spinal cord	59.4 nTPM