Single cell type - RNMT - 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.	RNMT
Gene descriptionⁱ Full gene name according to HGNC.	RNA guanine-7 methyltransferase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic 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.	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	Non-specific - Transcription (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

RNMT is part of cluster 52 Non-specific - Transcription with confidenceⁱ 0.94
611 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
SMCHD1	Structural maintenance of chromosomes flexible hinge domain containing 1	0.5519	24
DDX24	DEAD-box helicase 24	0.5439	24
SF1	Splicing factor 1	0.5411	57
FAM133B	Family with sequence similarity 133 member B	0.5290	44
MED6	Mediator complex subunit 6	0.5270	52
EPC1	Enhancer of polycomb homolog 1	0.5136	24
SUPV3L1	Suv3 like RNA helicase	0.5134	24
PRPF4B	Pre-mRNA processing factor 4B	0.5062	52
RGPD5	RANBP2 like and GRIP domain containing 5	0.5051	52
CCNK	Cyclin K	0.4998	44
ATG12	Autophagy related 12	0.4964	24
KANSL2	KAT8 regulatory NSL complex subunit 2	0.4940	7
CENPC	Centromere protein C	0.4908	24
ABCF3	ATP binding cassette subfamily F member 3	0.4886	39
BCLAF1	BCL2 associated transcription factor 1	0.4861	52

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	62.5 nTPM
Adipose tissue	68.0 nTPM
Breast	56.9 nTPM

Alveolar cells type 1	73.7 nTPM
Lung	73.7 nTPM

Alveolar cells type 2	29.9 nTPM
Lung	29.9 nTPM

Astrocytes	48.6 nTPM
Brain	48.6 nTPM

B-cells	148.5 nTPM
Adipose tissue	374.9 nTPM
Stomach	243.0 nTPM
Colon	199.7 nTPM
Lymph node	136.0 nTPM
Spleen	132.9 nTPM
Breast	120.3 nTPM
Bone marrow	102.2 nTPM
PBMC	85.6 nTPM
Liver	57.4 nTPM
Kidney	33.4 nTPM

Dendritic cells	143.4 nTPM
Adipose tissue	247.6 nTPM
Breast	95.1 nTPM
PBMC	87.6 nTPM

Endothelial cells	43.7 nTPM
Endometrium	70.0 nTPM
Pancreas	61.8 nTPM
Testis	50.3 nTPM
Eye	49.3 nTPM
Ovary	46.9 nTPM
Skeletal muscle	45.9 nTPM
Breast	44.4 nTPM
Placenta	40.4 nTPM
Liver	40.3 nTPM
Prostate	39.1 nTPM
Heart muscle	31.9 nTPM
Lung	31.2 nTPM
Esophagus	30.9 nTPM
Skin	29.4 nTPM

Fibroblasts	71.6 nTPM
Adipose tissue	113.3 nTPM
Prostate	87.8 nTPM
Heart muscle	85.9 nTPM
Breast	82.0 nTPM
Stomach	72.7 nTPM
Placenta	71.5 nTPM
Skeletal muscle	68.0 nTPM
Lung	63.7 nTPM
Esophagus	52.6 nTPM
Skin	46.4 nTPM
Ovary	43.3 nTPM

Intestinal goblet cells	56.3 nTPM
Colon	80.0 nTPM
Small intestine	50.3 nTPM
Rectum	38.6 nTPM

Macrophages	78.8 nTPM
Adipose tissue	201.7 nTPM
Endometrium	132.6 nTPM
Stomach	99.6 nTPM
Skeletal muscle	93.8 nTPM
Breast	88.6 nTPM
Spleen	79.9 nTPM
Ovary	77.6 nTPM
Kidney	74.2 nTPM
Bone marrow	61.2 nTPM
Prostate	53.9 nTPM
Pancreas	53.7 nTPM
Lung	52.7 nTPM
Esophagus	51.9 nTPM
Testis	47.7 nTPM
PBMC	13.6 nTPM

Paneth cells	47.0 nTPM
Colon	65.8 nTPM
Rectum	41.5 nTPM
Small intestine	33.8 nTPM

Plasma cells	99.7 nTPM
Adipose tissue	243.8 nTPM
Stomach	107.7 nTPM
Esophagus	55.5 nTPM
Spleen	50.1 nTPM
Bone marrow	41.2 nTPM

Respiratory ciliated cells	48.0 nTPM
Bronchus	59.5 nTPM
Lung	36.5 nTPM

Smooth muscle cells	60.0 nTPM
Adipose tissue	97.8 nTPM
Endometrium	77.7 nTPM
Skeletal muscle	73.4 nTPM
Prostate	63.5 nTPM
Ovary	62.8 nTPM
Heart muscle	57.9 nTPM
Skin	54.8 nTPM
Breast	53.0 nTPM
Pancreas	44.8 nTPM
Bronchus	39.3 nTPM
Esophagus	35.7 nTPM

T-cells	113.1 nTPM
Adipose tissue	310.9 nTPM
Endometrium	187.1 nTPM
Colon	143.0 nTPM
Lymph node	125.9 nTPM
Skeletal muscle	118.1 nTPM
Esophagus	117.9 nTPM
Stomach	117.1 nTPM
Breast	116.5 nTPM
Skin	93.9 nTPM
Spleen	87.4 nTPM
PBMC	87.3 nTPM
Prostate	85.2 nTPM
Bone marrow	75.2 nTPM
Ovary	73.4 nTPM
Kidney	66.4 nTPM
Liver	61.1 nTPM
Lung	56.2 nTPM

Basal keratinocytes	70.4 nTPM
Skin	70.4 nTPM

Basal prostatic cells	67.3 nTPM
Prostate	67.3 nTPM

Basal respiratory cells	97.9 nTPM
Bronchus	97.9 nTPM

Basal squamous epithelial cells	75.1 nTPM
Esophagus	75.1 nTPM

Undifferentiated cells	50.0 nTPM
Colon	64.2 nTPM
Small intestine	45.8 nTPM
Rectum	40.1 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