Single cell type - PGRMC2 - 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.	PGRMC2
Gene descriptionⁱ Full gene name according to HGNC.	Progesterone receptor membrane component 2
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,Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	7

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 (Syncytiotrophoblasts)
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 (Syncytiotrophoblasts)

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

PGRMC2 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
HSD3B7	Hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 7	0.5560	50
PXDC1	PX domain containing 1	0.5556	50
IYD	Iodotyrosine deiodinase	0.5337	45
MME	Membrane metalloendopeptidase	0.5235	45
TOR1AIP2	Torsin 1A interacting protein 2	0.4901	2
HNF1A	HNF1 homeobox A	0.4814	45
C9orf64	Chromosome 9 open reading frame 64	0.4771	2
CYBRD1	Cytochrome b reductase 1	0.4725	45
HSD3B1	Hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 1	0.4611	18
DPP4	Dipeptidyl peptidase 4	0.4588	67
CYP4F2	Cytochrome P450 family 4 subfamily F member 2	0.4580	2
SDF4	Stromal cell derived factor 4	0.4578	45
LGALS2	Galectin 2	0.4517	67
SURF4	Surfeit 4	0.4502	55
PLIN2	Perilipin 2	0.4485	18

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	95.9 nTPM
Adipose tissue	106.6 nTPM
Breast	85.2 nTPM

Alveolar cells type 1	54.5 nTPM
Lung	54.5 nTPM

Alveolar cells type 2	41.0 nTPM
Lung	41.0 nTPM

Astrocytes	16.6 nTPM
Brain	16.6 nTPM

B-cells	27.0 nTPM
Liver	65.9 nTPM
Breast	40.2 nTPM
Kidney	33.4 nTPM
Stomach	23.6 nTPM
Spleen	23.2 nTPM
Adipose tissue	20.6 nTPM
Lymph node	18.1 nTPM
Colon	17.6 nTPM
Bone marrow	14.7 nTPM
PBMC	12.9 nTPM

Dendritic cells	41.2 nTPM
Adipose tissue	70.7 nTPM
Breast	28.8 nTPM
PBMC	23.9 nTPM

Endothelial cells	50.0 nTPM
Lung	74.8 nTPM
Pancreas	65.6 nTPM
Breast	58.2 nTPM
Heart muscle	58.0 nTPM
Placenta	55.7 nTPM
Liver	55.0 nTPM
Skin	52.6 nTPM
Skeletal muscle	48.8 nTPM
Eye	42.9 nTPM
Prostate	42.8 nTPM
Testis	39.7 nTPM
Endometrium	37.6 nTPM
Esophagus	36.0 nTPM
Ovary	32.0 nTPM

Erythroid cells	104.2 nTPM
Liver	160.4 nTPM
Bone marrow	47.9 nTPM

Fibroblasts	69.9 nTPM
Adipose tissue	123.4 nTPM
Skin	99.8 nTPM
Skeletal muscle	79.1 nTPM
Esophagus	77.8 nTPM
Prostate	69.4 nTPM
Breast	65.4 nTPM
Heart muscle	64.5 nTPM
Placenta	63.5 nTPM
Stomach	55.0 nTPM
Lung	35.7 nTPM
Ovary	34.6 nTPM

Intestinal goblet cells	67.8 nTPM
Rectum	79.7 nTPM
Small intestine	64.3 nTPM
Colon	59.3 nTPM

Macrophages	22.1 nTPM
Ovary	76.0 nTPM
Pancreas	38.3 nTPM
Kidney	35.6 nTPM
Lung	23.4 nTPM
Esophagus	20.4 nTPM
Endometrium	20.1 nTPM
Breast	18.1 nTPM
Adipose tissue	17.0 nTPM
Testis	15.7 nTPM
Spleen	15.6 nTPM
Skeletal muscle	15.2 nTPM
Stomach	14.7 nTPM
Prostate	12.6 nTPM
Bone marrow	8.7 nTPM
PBMC	0.0 nTPM

Paneth cells	50.6 nTPM
Rectum	72.1 nTPM
Small intestine	60.1 nTPM
Colon	19.7 nTPM

Plasma cells	48.9 nTPM
Esophagus	67.8 nTPM
Stomach	57.4 nTPM
Adipose tissue	49.1 nTPM
Spleen	37.4 nTPM
Bone marrow	33.0 nTPM

Respiratory ciliated cells	27.4 nTPM
Bronchus	28.5 nTPM
Lung	26.2 nTPM

Smooth muscle cells	53.1 nTPM
Pancreas	100.0 nTPM
Skin	76.1 nTPM
Ovary	55.6 nTPM
Skeletal muscle	53.8 nTPM
Adipose tissue	53.7 nTPM
Prostate	51.9 nTPM
Esophagus	43.4 nTPM
Breast	40.9 nTPM
Endometrium	39.2 nTPM
Bronchus	36.8 nTPM
Heart muscle	32.8 nTPM

Basal keratinocytes	100.1 nTPM
Skin	100.1 nTPM

Basal prostatic cells	49.7 nTPM
Prostate	49.7 nTPM

Basal respiratory cells	27.8 nTPM
Bronchus	27.8 nTPM

Basal squamous epithelial cells	54.1 nTPM
Esophagus	54.1 nTPM

T-cells	32.4 nTPM
Adipose tissue	54.8 nTPM
Skin	53.0 nTPM
Kidney	49.3 nTPM
Endometrium	49.0 nTPM
Skeletal muscle	33.4 nTPM
Ovary	33.3 nTPM
Lung	31.9 nTPM
Lymph node	30.9 nTPM
Colon	30.0 nTPM
Breast	26.9 nTPM
Esophagus	26.2 nTPM
Spleen	24.4 nTPM
Liver	23.8 nTPM
Prostate	23.6 nTPM
PBMC	22.7 nTPM
Stomach	20.7 nTPM
Bone marrow	17.5 nTPM

Undifferentiated cells	58.8 nTPM
Small intestine	66.2 nTPM
Rectum	65.3 nTPM
Colon	45.0 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