Single cell type - NECAB3 - The Human Protein Atlas

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.	NECAB3
Gene descriptionⁱ Full gene name according to HGNC.	N-terminal EF-hand calcium binding protein 3
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. Read more	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. Read more	Enterocytes - Digestion (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. Read more	Cell type enhanced (Early spermatids)
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. Read more	Low immune cell specificity
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in many
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Cell type enhanced (Early spermatids)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

NECAB3 is part of cluster 45 Enterocytes - Digestion with confidenceⁱ 1
268 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
SLC16A5	Solute carrier family 16 member 5	0.5277	45
PLB1	Phospholipase B1	0.4963	45
C14orf28	Chromosome 14 open reading frame 28	0.4793	34
IGSF23	Immunoglobulin superfamily member 23	0.4668	45
TRIM45	Tripartite motif containing 45	0.4548	54
RMDN2	Regulator of microtubule dynamics 2	0.4519	23
LRRC36	Leucine rich repeat containing 36	0.4492	29
SLC37A1	Solute carrier family 37 member 1	0.4480	34
ZNF91	Zinc finger protein 91	0.4286	34
DNAJA3	DnaJ heat shock protein family (Hsp40) member A3	0.4282	39
PITRM1	Pitrilysin metallopeptidase 1	0.4277	34
GFER	Growth factor, augmenter of liver regeneration	0.4265	45
HADH	Hydroxyacyl-CoA dehydrogenase	0.4216	39
TRABD2A	TraB domain containing 2A	0.4199	34
ZNF57	Zinc finger protein 57	0.4193	34

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	5.4 nTPM
Adipose tissue	7.0 nTPM
Breast	3.7 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	45.5 nTPM
Lung	45.5 nTPM

Astrocytes	14.7 nTPM
Brain	14.7 nTPM

B-cells	4.1 nTPM
Breast	10.7 nTPM
Liver	5.9 nTPM
Kidney	4.8 nTPM
PBMC	4.3 nTPM
Colon	3.2 nTPM
Bone marrow	3.2 nTPM
Adipose tissue	2.5 nTPM
Stomach	2.2 nTPM
Lymph node	2.1 nTPM
Spleen	2.1 nTPM

Dendritic cells	3.8 nTPM
Breast	6.5 nTPM
Adipose tissue	4.8 nTPM
PBMC	0.0 nTPM

Endothelial cells	2.4 nTPM
Heart muscle	5.9 nTPM
Breast	4.8 nTPM
Eye	4.1 nTPM
Skin	3.6 nTPM
Placenta	3.4 nTPM
Testis	2.1 nTPM
Prostate	2.0 nTPM
Endometrium	1.9 nTPM
Skeletal muscle	1.7 nTPM
Esophagus	1.6 nTPM
Ovary	1.5 nTPM
Liver	0.9 nTPM
Lung	0.0 nTPM
Pancreas	0.0 nTPM

Fibroblasts	12.5 nTPM
Ovary	18.7 nTPM
Adipose tissue	18.3 nTPM
Placenta	17.7 nTPM
Breast	15.0 nTPM
Esophagus	14.3 nTPM
Heart muscle	13.4 nTPM
Stomach	10.4 nTPM
Skeletal muscle	9.3 nTPM
Lung	7.8 nTPM
Skin	7.0 nTPM
Prostate	5.7 nTPM

Intestinal goblet cells	16.2 nTPM
Rectum	20.3 nTPM
Colon	15.7 nTPM
Small intestine	12.5 nTPM

Macrophages	5.5 nTPM
Kidney	10.6 nTPM
Adipose tissue	8.4 nTPM
Ovary	7.9 nTPM
Spleen	7.2 nTPM
Lung	6.4 nTPM
Breast	6.1 nTPM
Testis	5.8 nTPM
Skeletal muscle	5.5 nTPM
Bone marrow	5.0 nTPM
Esophagus	4.8 nTPM
Prostate	4.6 nTPM
Endometrium	4.4 nTPM
Stomach	2.9 nTPM
Pancreas	2.5 nTPM
PBMC	0.0 nTPM

Paneth cells	15.1 nTPM
Colon	23.1 nTPM
Rectum	14.7 nTPM
Small intestine	7.5 nTPM

Plasma cells	11.7 nTPM
Esophagus	24.6 nTPM
Stomach	16.5 nTPM
Spleen	6.7 nTPM
Adipose tissue	5.8 nTPM
Bone marrow	5.0 nTPM

Respiratory ciliated cells	3.8 nTPM
Lung	4.4 nTPM
Bronchus	3.3 nTPM

Smooth muscle cells	12.1 nTPM
Skin	22.3 nTPM
Breast	17.1 nTPM
Esophagus	17.0 nTPM
Prostate	16.6 nTPM
Pancreas	13.7 nTPM
Ovary	11.3 nTPM
Adipose tissue	9.9 nTPM
Endometrium	9.5 nTPM
Heart muscle	7.9 nTPM
Skeletal muscle	6.4 nTPM
Bronchus	1.9 nTPM

T-cells	5.4 nTPM
Colon	9.5 nTPM
Stomach	8.0 nTPM
Ovary	6.7 nTPM
Esophagus	6.6 nTPM
Kidney	6.2 nTPM
Adipose tissue	6.1 nTPM
Skin	5.5 nTPM
Breast	5.3 nTPM
PBMC	5.2 nTPM
Prostate	4.7 nTPM
Bone marrow	4.7 nTPM
Liver	4.5 nTPM
Endometrium	4.4 nTPM
Spleen	4.2 nTPM
Lymph node	3.6 nTPM
Skeletal muscle	3.3 nTPM
Lung	3.0 nTPM

Basal keratinocytes	3.1 nTPM
Skin	3.1 nTPM

Basal respiratory cells	2.7 nTPM
Bronchus	2.7 nTPM

Basal squamous epithelial cells	8.6 nTPM
Esophagus	8.6 nTPM

Cholangiocytes	10.0 nTPM
Liver	10.0 nTPM

Undifferentiated cells	20.0 nTPM
Rectum	24.9 nTPM
Small intestine	19.8 nTPM
Colon	15.4 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC