Single cell type - EFCAB10 - The Human Protein Atlas

EFCAB10

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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.	EFCAB10
Gene descriptionⁱ Full gene name according to HGNC.	EF-hand calcium binding domain 10
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.	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.	Ciliated cells - Cilium assembly (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 (Oocytes, Early spermatids, Ciliated cells, Late spermatids, Spermatocytes)
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.	0.89
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 (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.	Low immune cell specificity
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 (Oocytes, Early spermatids, Ciliated cells, Late spermatids, Spermatocytes)

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 (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: Low immune cell specificity
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

EFCAB10 is part of cluster 42 Ciliated cells - Cilium assembly with confidenceⁱ 1
429 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.
CFAP77	Cilia and flagella associated protein 77	0.8499	42
RSPH9	Radial spoke head component 9	0.7009	42
PRR29	Proline rich 29	0.6971	42
DNAH12	Dynein axonemal heavy chain 12	0.6954	42
TUBA4B	Tubulin alpha 4b	0.6945	42
SPAG8	Sperm associated antigen 8	0.6933	42
CFAP52	Cilia and flagella associated protein 52	0.6931	42
NEK5	NIMA related kinase 5	0.6924	42
ODAD1	Outer dynein arm docking complex subunit 1	0.6860	42
C22orf15	Chromosome 22 open reading frame 15	0.6831	42
CFAP157	Cilia and flagella associated protein 157	0.6775	42
C7orf57	Chromosome 7 open reading frame 57	0.6759	42
RSPH1	Radial spoke head component 1	0.6715	42
C11orf16	Chromosome 11 open reading frame 16	0.6714	42
EFHC1	EF-hand domain containing 1	0.6669	42

IMMUNE CELLS

EFCAB10 is part of cluster 41 Basophils - Unknown function with confidenceⁱ 0.95
293 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.
LANCL3	LanC like family member 3	1.0000	41
ZNF763	Zinc finger protein 763	1.0000	41
ZSCAN16	Zinc finger and SCAN domain containing 16	1.0000	41
ZNF620	Zinc finger protein 620	1.0000	41
TMEM81	Transmembrane protein 81	1.0000	41
KRT86	Keratin 86	1.0000	41
F2RL2	Coagulation factor II thrombin receptor like 2	1.0000	41
TMEM143	Transmembrane protein 143	1.0000	41
UBE2Q1	Ubiquitin conjugating enzyme E2 Q1	1.0000	41
LRP12	LDL receptor related protein 12	1.0000	41
C5orf22	Chromosome 5 open reading frame 22	1.0000	41
DENR	Density regulated re-initiation and release factor	1.0000	41
CENPE	Centromere protein E	1.0000	41
PRKAB2	Protein kinase AMP-activated non-catalytic subunit beta 2	1.0000	41
GALNT15	Polypeptide N-acetylgalactosaminyltransferase 15	1.0000	41

Adipocytes	0.1 nTPM
Breast	0.1 nTPM
Adipose tissue	0.0 nTPM

Alveolar cells type 1	0.4 nTPM
Lung	0.4 nTPM

Alveolar cells type 2	0.6 nTPM
Lung	0.6 nTPM

Astrocytes	0.3 nTPM
Brain	0.3 nTPM

B-cells	0.2 nTPM
PBMC	1.5 nTPM
Salivary gland	0.6 nTPM
Adipose tissue	0.4 nTPM
Lymph node	0.2 nTPM
Thymus	0.2 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	135.9 nTPM
Lung	160.8 nTPM
Endometrium	141.3 nTPM
Bronchus	135.2 nTPM
Fallopian tube	106.4 nTPM

Club cells	6.8 nTPM
Bronchus	19.6 nTPM
Lung	0.7 nTPM
Prostate	0.1 nTPM

Endothelial cells	0.2 nTPM
Testis	1.8 nTPM
Endometrium	0.8 nTPM
Fallopian tube	0.7 nTPM
Skeletal muscle	0.3 nTPM
Ovary	0.3 nTPM
Prostate	0.2 nTPM
Thymus	0.1 nTPM
Vascular	0.1 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Lung	0.0 nTPM
Salivary gland	0.0 nTPM
Tongue	0.0 nTPM
Breast	0.0 nTPM

Enteroendocrine cells	0.0 nTPM
Colon	0.1 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	0.3 nTPM
Fallopian tube	1.5 nTPM
Stomach	1.4 nTPM
Skeletal muscle	0.5 nTPM
Lung	0.3 nTPM
Adipose tissue	0.2 nTPM
Salivary gland	0.1 nTPM
Thymus	0.1 nTPM
Vascular	0.1 nTPM
Breast	0.1 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Prostate	0.0 nTPM

Granulocytes	2.4 nTPM
Tongue	4.9 nTPM
Fallopian tube	2.3 nTPM
Lung	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	0.2 nTPM
Fallopian tube	0.4 nTPM
Ovary	0.0 nTPM

Macrophages	0.3 nTPM
Testis	1.9 nTPM
Endometrium	1.2 nTPM
Skeletal muscle	0.9 nTPM
Fallopian tube	0.9 nTPM
Breast	0.3 nTPM
Adipose tissue	0.1 nTPM
Lung	0.1 nTPM
Salivary gland	0.1 nTPM
Kidney	0.0 nTPM
Pancreas	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Prostate	0.0 nTPM
Thymus	0.0 nTPM
Tongue	0.0 nTPM
Vascular	0.0 nTPM

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

Basal respiratory cells	10.9 nTPM
Bronchus	10.9 nTPM

Endometrial stromal cells	1.0 nTPM
Endometrium	1.0 nTPM

Plasma cells	1.4 nTPM
Esophagus	10.4 nTPM
Liver	0.5 nTPM
Salivary gland	0.4 nTPM
Thymus	0.3 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Fallopian tube	0.0 nTPM

Schwann cells	0.1 nTPM
Adipose tissue	0.4 nTPM
Esophagus	0.0 nTPM
Vascular	0.0 nTPM

Serous glandular cells	6.7 nTPM
Tongue	13.3 nTPM
Salivary gland	0.2 nTPM

Smooth muscle cells	0.3 nTPM
Lung	1.2 nTPM
Adipose tissue	0.7 nTPM
Ovary	0.7 nTPM
Skeletal muscle	0.6 nTPM
Endometrium	0.5 nTPM
Fallopian tube	0.3 nTPM
Breast	0.2 nTPM
Placenta	0.1 nTPM
Thymus	0.1 nTPM
Vascular	0.1 nTPM
Liver	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Prostate	0.0 nTPM
Salivary gland	0.0 nTPM
Tongue	0.0 nTPM

T-cells	0.5 nTPM
Endometrium	2.2 nTPM
Fallopian tube	2.2 nTPM
Vascular	1.6 nTPM
Adipose tissue	1.0 nTPM
Breast	0.7 nTPM
Lymph node	0.6 nTPM
Skeletal muscle	0.4 nTPM
Prostate	0.4 nTPM
Thymus	0.4 nTPM
Tongue	0.4 nTPM
Stomach	0.3 nTPM
Lung	0.3 nTPM
PBMC	0.2 nTPM
Spleen	0.2 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Salivary gland	0.0 nTPM

Undifferentiated cells	0.2 nTPM
Colon	0.6 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Amygdala excitatory	8.1 nTPM
Cerebral cortex	8.9 nTPM
Hypothalamus	8.7 nTPM
Thalamus	8.2 nTPM
Hippocampus	8.1 nTPM
Basal ganglia	7.8 nTPM
Amygdala	7.0 nTPM

Astrocyte	2.3 nTPM
Hypothalamus	5.7 nTPM
Medulla oblongata	3.8 nTPM
Basal ganglia	2.6 nTPM
Spinal cord	2.2 nTPM
Thalamus	2.0 nTPM
Amygdala	1.8 nTPM
Midbrain	1.8 nTPM
Hippocampus	1.6 nTPM
Pons	1.5 nTPM
Cerebellum	1.4 nTPM
Cerebral cortex	1.4 nTPM

Bergmann glia	2.4 nTPM
Medulla oblongata	4.3 nTPM
Cerebellum	1.4 nTPM
Pons	1.4 nTPM

Central nervous system macrophage	1.5 nTPM
Thalamus	2.1 nTPM
Medulla oblongata	1.8 nTPM
Spinal cord	1.8 nTPM
Hypothalamus	1.7 nTPM
Basal ganglia	1.6 nTPM
Amygdala	1.4 nTPM
Hippocampus	1.4 nTPM
Pons	1.3 nTPM
Midbrain	1.1 nTPM
Cerebral cortex	1.0 nTPM
Cerebellum	0.8 nTPM

Cerebellar inhibitory	4.4 nTPM
Spinal cord	5.5 nTPM
Medulla oblongata	5.0 nTPM
Cerebellum	4.3 nTPM
Pons	4.2 nTPM
Midbrain	3.1 nTPM

Cge interneuron	3.8 nTPM
Hippocampus	4.2 nTPM
Amygdala	4.0 nTPM
Thalamus	4.0 nTPM
Basal ganglia	3.8 nTPM
Cerebral cortex	3.8 nTPM
Midbrain	3.7 nTPM
Hypothalamus	2.7 nTPM

Choroid plexus epithelial cell	18.7 nTPM
Thalamus	21.9 nTPM
Basal ganglia	21.8 nTPM
Hippocampus	16.6 nTPM
Medulla oblongata	14.2 nTPM

Committed oligodendrocyte precursor	1.9 nTPM
Pons	4.4 nTPM
Cerebellum	3.2 nTPM
Basal ganglia	2.7 nTPM
Medulla oblongata	2.6 nTPM
Cerebral cortex	2.5 nTPM
Thalamus	2.5 nTPM
Hippocampus	2.3 nTPM
Hypothalamus	0.7 nTPM
Amygdala	0.0 nTPM
Midbrain	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	7.3 nTPM
Basal ganglia	10.0 nTPM
Cerebral cortex	8.3 nTPM
Amygdala	8.0 nTPM
Hippocampus	6.8 nTPM
Hypothalamus	6.0 nTPM
Midbrain	4.4 nTPM

Deep-layer intratelencephalic	8.9 nTPM
Basal ganglia	11.4 nTPM
Cerebral cortex	9.0 nTPM
Amygdala	8.3 nTPM
Hypothalamus	8.1 nTPM
Hippocampus	7.8 nTPM

Deep-layer near-projecting	8.1 nTPM
Hippocampus	13.3 nTPM
Basal ganglia	7.8 nTPM
Amygdala	7.3 nTPM
Cerebral cortex	6.8 nTPM
Hypothalamus	5.4 nTPM

Eccentric medium spiny neuron	8.5 nTPM
Hypothalamus	10.3 nTPM
Basal ganglia	9.3 nTPM
Amygdala	8.0 nTPM
Hippocampus	7.9 nTPM
Thalamus	7.9 nTPM
Cerebral cortex	7.8 nTPM

Endothelial cell	1.6 nTPM
Hypothalamus	3.7 nTPM
Amygdala	3.4 nTPM
Pons	2.5 nTPM
Thalamus	2.3 nTPM
Cerebellum	1.5 nTPM
Hippocampus	1.0 nTPM
Medulla oblongata	1.0 nTPM
Basal ganglia	0.9 nTPM
Midbrain	0.9 nTPM
Cerebral cortex	0.0 nTPM
Spinal cord	0.0 nTPM

Ependymal cell	105.7 nTPM
Amygdala	130.3 nTPM
Midbrain	106.7 nTPM
Basal ganglia	106.4 nTPM
Medulla oblongata	106.2 nTPM
Pons	106.1 nTPM
Hypothalamus	104.4 nTPM
Spinal cord	101.6 nTPM
Hippocampus	96.8 nTPM
Thalamus	93.1 nTPM