Single cell type - COG3 - 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.	COG3
Gene descriptionⁱ Full gene name according to HGNC.	Component of oligomeric golgi complex 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.	2

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	Mucus-secreting cells - Mucin production (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	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. 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 all
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: Low cell type specificity

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

COG3 is part of cluster 27 Mucus-secreting cells - Mucin production with confidenceⁱ 1
121 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
SEC16A	SEC16 homolog A, endoplasmic reticulum export factor	0.5751	27
MIA3	MIA SH3 domain ER export factor 3	0.5513	52
EDEM3	ER degradation enhancing alpha-mannosidase like protein 3	0.4953	27
GOLGA3	Golgin A3	0.4667	46
ANO7	Anoctamin 7	0.4640	27
BRPF3	Bromodomain and PHD finger containing 3	0.4633	53
ARFIP2	ADP ribosylation factor interacting protein 2	0.4615	27
RAB40B	RAB40B, member RAS oncogene family	0.4479	44
GPR153	G protein-coupled receptor 153	0.4478	27
LARP1B	La ribonucleoprotein 1B	0.4477	34
SLC12A8	Solute carrier family 12 member 8	0.4457	27
GFPT1	Glutamine--fructose-6-phosphate transaminase 1	0.4395	27
LRRC26	Leucine rich repeat containing 26	0.4388	27
ARCN1	Archain 1	0.4349	55
TM9SF3	Transmembrane 9 superfamily member 3	0.4296	27

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	15.8 nTPM
Adipose tissue	19.6 nTPM
Breast	12.0 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	31.4 nTPM
Lung	31.4 nTPM

Astrocytes	23.2 nTPM
Brain	23.2 nTPM

B-cells	18.9 nTPM
Liver	34.9 nTPM
Bone marrow	27.8 nTPM
Adipose tissue	25.1 nTPM
Stomach	23.1 nTPM
Lymph node	22.9 nTPM
Colon	17.6 nTPM
Spleen	16.6 nTPM
Breast	13.4 nTPM
Kidney	4.8 nTPM
PBMC	2.8 nTPM

Dendritic cells	35.5 nTPM
Adipose tissue	47.5 nTPM
PBMC	39.8 nTPM
Breast	19.3 nTPM

Endothelial cells	16.7 nTPM
Heart muscle	40.7 nTPM
Prostate	22.4 nTPM
Liver	22.0 nTPM
Esophagus	19.5 nTPM
Endometrium	19.4 nTPM
Skeletal muscle	17.2 nTPM
Testis	14.5 nTPM
Breast	14.3 nTPM
Ovary	13.6 nTPM
Placenta	13.1 nTPM
Skin	12.0 nTPM
Lung	9.3 nTPM
Eye	8.1 nTPM
Pancreas	7.7 nTPM

Fibroblasts	14.3 nTPM
Heart muscle	23.3 nTPM
Stomach	16.3 nTPM
Prostate	15.4 nTPM
Esophagus	15.1 nTPM
Adipose tissue	14.9 nTPM
Ovary	13.7 nTPM
Skeletal muscle	13.5 nTPM
Breast	13.5 nTPM
Lung	11.1 nTPM
Placenta	10.4 nTPM
Skin	9.8 nTPM

Intestinal goblet cells	54.5 nTPM
Colon	73.6 nTPM
Small intestine	50.5 nTPM
Rectum	39.5 nTPM

Macrophages	13.3 nTPM
Endometrium	22.2 nTPM
Adipose tissue	21.1 nTPM
Lung	17.6 nTPM
Stomach	17.6 nTPM
Prostate	16.0 nTPM
Testis	15.7 nTPM
Spleen	15.6 nTPM
Kidney	15.2 nTPM
Skeletal muscle	13.5 nTPM
Ovary	11.9 nTPM
Breast	11.0 nTPM
Bone marrow	8.7 nTPM
Esophagus	7.9 nTPM
Pancreas	5.1 nTPM
PBMC	0.0 nTPM

Paneth cells	32.8 nTPM
Colon	39.6 nTPM
Small intestine	37.6 nTPM
Rectum	21.1 nTPM

Plasma cells	31.3 nTPM
Stomach	53.8 nTPM
Spleen	37.4 nTPM
Adipose tissue	31.0 nTPM
Bone marrow	28.0 nTPM
Esophagus	6.1 nTPM

Respiratory ciliated cells	11.7 nTPM
Bronchus	13.1 nTPM
Lung	10.2 nTPM

Smooth muscle cells	11.7 nTPM
Heart muscle	22.4 nTPM
Endometrium	16.4 nTPM
Adipose tissue	13.5 nTPM
Ovary	12.7 nTPM
Breast	12.2 nTPM
Pancreas	11.8 nTPM
Skeletal muscle	10.5 nTPM
Esophagus	9.3 nTPM
Skin	9.0 nTPM
Prostate	7.5 nTPM
Bronchus	2.9 nTPM

T-cells	21.2 nTPM
Adipose tissue	37.9 nTPM
Endometrium	33.3 nTPM
Stomach	30.7 nTPM
Lung	25.8 nTPM
Spleen	24.3 nTPM
Colon	23.3 nTPM
Bone marrow	23.0 nTPM
Liver	22.8 nTPM
Lymph node	22.3 nTPM
Esophagus	19.7 nTPM
Ovary	17.8 nTPM
Breast	17.6 nTPM
Skeletal muscle	17.4 nTPM
PBMC	13.0 nTPM
Kidney	11.6 nTPM
Skin	10.2 nTPM
Prostate	9.5 nTPM

Basal squamous epithelial cells	14.2 nTPM
Esophagus	14.2 nTPM

Collecting duct cells	12.9 nTPM
Kidney	12.9 nTPM

Cone photoreceptor cells	14.6 nTPM
Eye	14.6 nTPM

Cytotrophoblasts	14.2 nTPM
Placenta	14.2 nTPM

Undifferentiated cells	24.4 nTPM
Colon	26.6 nTPM
Rectum	24.7 nTPM
Small intestine	21.8 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