Single cell type - TRMT5 - 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.	TRMT5
Gene descriptionⁱ Full gene name according to HGNC.	TRNA methyltransferase 5
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Enzymes Human disease related genes Potential drug targets
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.	3

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	Early spermatids - Spermatogenesis (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 enriched (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 enriched (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

TRMT5 is part of cluster 29 Early spermatids - Spermatogenesis with confidenceⁱ 1
337 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
CCDC27	Coiled-coil domain containing 27	0.7248	29
MOCS3	Molybdenum cofactor synthesis 3	0.7099	29
C16orf92	Chromosome 16 open reading frame 92	0.7098	23
SUV39H2	Suppressor of variegation 3-9 homolog 2	0.7088	23
SPAM1	Sperm adhesion molecule 1	0.7087	29
ZC3H14	Zinc finger CCCH-type containing 14	0.7049	29
EFCAB3	EF-hand calcium binding domain 3	0.7028	29
SMIM23	Small integral membrane protein 23	0.7024	29
HOMEZ	Homeobox and leucine zipper encoding	0.7001	23
SPATA25	Spermatogenesis associated 25	0.6992	29
LRRC52	Leucine rich repeat containing 52	0.6982	23
PDILT	Protein disulfide isomerase like, testis expressed	0.6968	29
ACRV1	Acrosomal vesicle protein 1	0.6958	29
ACTRT3	Actin related protein T3	0.6946	29
SPATA31D3	SPATA31 subfamily D member 3	0.6933	29

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	7.0 nTPM
Breast	9.5 nTPM
Adipose tissue	4.5 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	10.9 nTPM
Lung	10.9 nTPM

Astrocytes	3.9 nTPM
Brain	3.9 nTPM

B-cells	4.5 nTPM
Liver	8.7 nTPM
Bone marrow	8.1 nTPM
Colon	6.4 nTPM
Adipose tissue	4.5 nTPM
Spleen	4.5 nTPM
Breast	4.0 nTPM
Stomach	3.7 nTPM
PBMC	2.8 nTPM
Lymph node	2.7 nTPM
Kidney	0.0 nTPM

Dendritic cells	5.7 nTPM
PBMC	12.0 nTPM
Breast	3.3 nTPM
Adipose tissue	1.9 nTPM

Endothelial cells	9.2 nTPM
Lung	15.6 nTPM
Pancreas	15.5 nTPM
Prostate	9.9 nTPM
Heart muscle	9.7 nTPM
Placenta	9.7 nTPM
Liver	9.2 nTPM
Testis	9.2 nTPM
Endometrium	8.9 nTPM
Ovary	8.6 nTPM
Eye	7.3 nTPM
Skeletal muscle	6.5 nTPM
Breast	6.4 nTPM
Esophagus	6.2 nTPM
Skin	6.1 nTPM

Fibroblasts	12.4 nTPM
Lung	39.1 nTPM
Heart muscle	13.1 nTPM
Adipose tissue	12.9 nTPM
Breast	12.5 nTPM
Skeletal muscle	12.4 nTPM
Ovary	11.2 nTPM
Placenta	10.1 nTPM
Stomach	7.4 nTPM
Esophagus	7.2 nTPM
Skin	6.1 nTPM
Prostate	4.3 nTPM

Intestinal goblet cells	8.3 nTPM
Small intestine	8.9 nTPM
Colon	8.5 nTPM
Rectum	7.5 nTPM

Macrophages	6.0 nTPM
Testis	14.0 nTPM
Lung	12.9 nTPM
Ovary	8.7 nTPM
Prostate	8.1 nTPM
Pancreas	7.7 nTPM
Endometrium	6.5 nTPM
Breast	6.4 nTPM
Skeletal muscle	6.0 nTPM
Bone marrow	5.0 nTPM
Kidney	4.6 nTPM
Adipose tissue	4.5 nTPM
Esophagus	3.1 nTPM
Spleen	2.1 nTPM
PBMC	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	4.8 nTPM
Rectum	7.3 nTPM
Small intestine	3.7 nTPM
Colon	3.3 nTPM

Plasma cells	4.7 nTPM
Spleen	6.4 nTPM
Esophagus	6.1 nTPM
Bone marrow	5.0 nTPM
Stomach	3.8 nTPM
Adipose tissue	1.9 nTPM

Respiratory ciliated cells	14.9 nTPM
Lung	20.4 nTPM
Bronchus	9.3 nTPM

Smooth muscle cells	9.5 nTPM
Bronchus	12.2 nTPM
Pancreas	11.6 nTPM
Heart muscle	11.1 nTPM
Breast	10.6 nTPM
Ovary	10.2 nTPM
Endometrium	10.0 nTPM
Esophagus	9.3 nTPM
Skeletal muscle	8.4 nTPM
Adipose tissue	7.9 nTPM
Skin	6.7 nTPM
Prostate	6.2 nTPM

T-cells	5.2 nTPM
Prostate	19.0 nTPM
Lung	12.2 nTPM
Kidney	8.2 nTPM
Ovary	6.7 nTPM
Skin	5.0 nTPM
Bone marrow	5.0 nTPM
PBMC	4.8 nTPM
Endometrium	4.3 nTPM
Stomach	4.3 nTPM
Breast	4.3 nTPM
Liver	2.9 nTPM
Skeletal muscle	2.5 nTPM
Colon	2.4 nTPM
Adipose tissue	2.4 nTPM
Spleen	2.4 nTPM
Lymph node	1.6 nTPM
Esophagus	0.0 nTPM

Basal prostatic cells	19.5 nTPM
Prostate	19.5 nTPM

Basal respiratory cells	15.9 nTPM
Bronchus	15.9 nTPM

Basal squamous epithelial cells	9.6 nTPM
Esophagus	9.6 nTPM

Cholangiocytes	1.5 nTPM
Liver	1.5 nTPM

Undifferentiated cells	7.6 nTPM
Rectum	9.1 nTPM
Small intestine	7.0 nTPM
Colon	6.8 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