Single cell type - EMG1 - 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.	EMG1
Gene descriptionⁱ Full gene name according to HGNC.	EMG1 N1-specific pseudouridine methyltransferase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Human disease related genes Metabolic proteins Plasma proteins
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	Non-specific - Unknown function (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

EMG1 is part of cluster 10 Non-specific - Unknown function with confidenceⁱ 1
482 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
PARL	Presenilin associated rhomboid like	0.8260	10
RRP9	Ribosomal RNA processing 9, U3 small nucleolar RNA binding protein	0.8252	10
ZMAT5	Zinc finger matrin-type 5	0.8219	10
PSMB2	Proteasome 20S subunit beta 2	0.8194	10
TMEM60	Transmembrane protein 60	0.8137	10
ANGPTL6	Angiopoietin like 6	0.8084	10
GSTA5	Glutathione S-transferase alpha 5	0.8031	10
PSMB5	Proteasome 20S subunit beta 5	0.7924	10
ESD	Esterase D	0.7877	10
EIF3I	Eukaryotic translation initiation factor 3 subunit I	0.7844	10
CCT5	Chaperonin containing TCP1 subunit 5	0.7822	10
WDR12	WD repeat domain 12	0.7704	10
PSMB3	Proteasome 20S subunit beta 3	0.7692	10
FCF1	FCF1 rRNA-processing protein	0.7628	10
WDR61	WD repeat domain 61	0.7576	10

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	30.1 nTPM
Breast	34.5 nTPM
Adipose tissue	25.6 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	41.3 nTPM
Lung	41.3 nTPM

Astrocytes	1.3 nTPM
Brain	1.3 nTPM

B-cells	34.0 nTPM
Colon	65.5 nTPM
PBMC	44.2 nTPM
Liver	39.7 nTPM
Kidney	38.1 nTPM
Stomach	38.1 nTPM
Bone marrow	30.2 nTPM
Spleen	26.9 nTPM
Adipose tissue	25.5 nTPM
Lymph node	16.6 nTPM
Breast	14.7 nTPM

Dendritic cells	22.8 nTPM
Breast	27.4 nTPM
Adipose tissue	21.0 nTPM
PBMC	20.0 nTPM

Endothelial cells	32.3 nTPM
Pancreas	73.4 nTPM
Prostate	56.6 nTPM
Placenta	50.6 nTPM
Skin	38.1 nTPM
Ovary	34.5 nTPM
Testis	32.9 nTPM
Skeletal muscle	30.8 nTPM
Liver	27.5 nTPM
Breast	26.5 nTPM
Lung	24.9 nTPM
Esophagus	21.2 nTPM
Endometrium	18.6 nTPM
Eye	16.2 nTPM
Heart muscle	0.0 nTPM

Fibroblasts	31.8 nTPM
Prostate	62.7 nTPM
Placenta	42.7 nTPM
Ovary	35.2 nTPM
Lung	34.7 nTPM
Adipose tissue	33.2 nTPM
Breast	31.9 nTPM
Skeletal muscle	31.7 nTPM
Skin	28.4 nTPM
Stomach	28.2 nTPM
Esophagus	20.6 nTPM
Heart muscle	0.0 nTPM

Intestinal goblet cells	25.7 nTPM
Rectum	30.2 nTPM
Colon	25.0 nTPM
Small intestine	21.9 nTPM

Macrophages	27.7 nTPM
Pancreas	71.5 nTPM
Kidney	59.7 nTPM
Lung	49.5 nTPM
Testis	37.8 nTPM
Prostate	25.3 nTPM
Ovary	24.6 nTPM
Breast	21.2 nTPM
Spleen	19.7 nTPM
Endometrium	18.1 nTPM
Stomach	17.6 nTPM
Bone marrow	16.3 nTPM
Adipose tissue	15.8 nTPM
Skeletal muscle	14.0 nTPM
PBMC	13.6 nTPM
Esophagus	11.0 nTPM

Paneth cells	19.8 nTPM
Rectum	34.2 nTPM
Small intestine	18.8 nTPM
Colon	6.5 nTPM

Plasma cells	17.3 nTPM
Bone marrow	24.7 nTPM
Spleen	20.2 nTPM
Adipose tissue	19.4 nTPM
Stomach	16.0 nTPM
Esophagus	6.1 nTPM

Respiratory ciliated cells	54.0 nTPM
Bronchus	61.5 nTPM
Lung	46.6 nTPM

Smooth muscle cells	86.5 nTPM
Bronchus	634.0 nTPM
Pancreas	102.5 nTPM
Prostate	45.9 nTPM
Skeletal muscle	31.2 nTPM
Breast	27.0 nTPM
Ovary	26.5 nTPM
Esophagus	24.8 nTPM
Adipose tissue	23.0 nTPM
Skin	21.2 nTPM
Endometrium	15.4 nTPM
Heart muscle	0.0 nTPM

T-cells	30.6 nTPM
PBMC	54.6 nTPM
Kidney	47.2 nTPM
Ovary	44.5 nTPM
Lung	42.6 nTPM
Colon	35.6 nTPM
Liver	35.4 nTPM
Stomach	33.3 nTPM
Bone marrow	32.1 nTPM
Skin	31.8 nTPM
Adipose tissue	25.9 nTPM
Prostate	23.6 nTPM
Endometrium	23.2 nTPM
Spleen	22.9 nTPM
Breast	21.4 nTPM
Skeletal muscle	17.7 nTPM
Lymph node	14.9 nTPM
Esophagus	13.1 nTPM

Basal keratinocytes	36.6 nTPM
Skin	36.6 nTPM

Basal prostatic cells	92.2 nTPM
Prostate	92.2 nTPM

Basal respiratory cells	79.1 nTPM
Bronchus	79.1 nTPM

Cholangiocytes	24.3 nTPM
Liver	24.3 nTPM

Undifferentiated cells	35.7 nTPM
Small intestine	37.0 nTPM
Colon	36.2 nTPM
Rectum	33.8 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