Single cell type - TRIM23 - 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.	TRIM23
Gene descriptionⁱ Full gene name according to HGNC.	Tripartite motif containing 23
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Enzymes
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.	4

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

TRIM23 is part of cluster 59 Non-specific - Transcription with confidenceⁱ 0.87
354 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
ZMYM1	Zinc finger MYM-type containing 1	0.5407	59
PJA2	Praja ring finger ubiquitin ligase 2	0.5345	43
SERINC1	Serine incorporator 1	0.5295	24
ZBTB41	Zinc finger and BTB domain containing 41	0.5239	52
PTPRA	Protein tyrosine phosphatase receptor type A	0.4917	50
GEMIN5	Gem nuclear organelle associated protein 5	0.4889	59
TCEAL7	Transcription elongation factor A like 7	0.4808	48
ANGEL2	Angel homolog 2	0.4799	59
CCDC152	Coiled-coil domain containing 152	0.4702	13
KIDINS220	Kinase D interacting substrate 220	0.4537	40
MXRA7	Matrix remodeling associated 7	0.4533	5
ZNF507	Zinc finger protein 507	0.4504	52
DSTYK	Dual serine/threonine and tyrosine protein kinase	0.4487	62
DTX1	Deltex E3 ubiquitin ligase 1	0.4476	62
FMR1	FMRP translational regulator 1	0.4446	44

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	13.8 nTPM
Adipose tissue	14.8 nTPM
Breast	12.9 nTPM

Alveolar cells type 1	19.2 nTPM
Lung	19.2 nTPM

Alveolar cells type 2	7.8 nTPM
Lung	7.8 nTPM

Astrocytes	28.1 nTPM
Brain	28.1 nTPM

B-cells	13.1 nTPM
Bone marrow	26.2 nTPM
Spleen	22.2 nTPM
Lymph node	20.1 nTPM
Stomach	17.2 nTPM
Adipose tissue	15.0 nTPM
Colon	12.8 nTPM
PBMC	7.1 nTPM
Liver	5.5 nTPM
Breast	5.3 nTPM
Kidney	0.0 nTPM

Dendritic cells	12.5 nTPM
Adipose tissue	26.0 nTPM
Breast	11.3 nTPM
PBMC	0.0 nTPM

Endothelial cells	11.1 nTPM
Eye	18.6 nTPM
Testis	16.3 nTPM
Heart muscle	16.2 nTPM
Skeletal muscle	13.6 nTPM
Endometrium	13.2 nTPM
Lung	12.5 nTPM
Esophagus	11.2 nTPM
Liver	10.1 nTPM
Breast	9.7 nTPM
Ovary	9.1 nTPM
Prostate	8.5 nTPM
Skin	7.2 nTPM
Placenta	5.1 nTPM
Pancreas	3.9 nTPM

Fibroblasts	17.1 nTPM
Heart muscle	39.2 nTPM
Adipose tissue	30.0 nTPM
Esophagus	22.8 nTPM
Skeletal muscle	19.9 nTPM
Breast	17.5 nTPM
Stomach	14.9 nTPM
Prostate	11.8 nTPM
Ovary	11.7 nTPM
Skin	9.3 nTPM
Placenta	7.2 nTPM
Lung	3.4 nTPM

Intestinal goblet cells	4.4 nTPM
Rectum	7.4 nTPM
Small intestine	5.1 nTPM
Colon	0.7 nTPM

Macrophages	7.4 nTPM
PBMC	13.6 nTPM
Ovary	13.6 nTPM
Testis	11.7 nTPM
Adipose tissue	10.5 nTPM
Spleen	9.3 nTPM
Prostate	8.1 nTPM
Endometrium	7.9 nTPM
Breast	7.7 nTPM
Bone marrow	7.5 nTPM
Skeletal muscle	7.4 nTPM
Esophagus	4.8 nTPM
Lung	3.5 nTPM
Kidney	3.0 nTPM
Pancreas	2.5 nTPM
Stomach	0.0 nTPM

Paneth cells	4.3 nTPM
Small intestine	7.5 nTPM
Rectum	5.2 nTPM
Colon	0.0 nTPM

Plasma cells	11.4 nTPM
Adipose tissue	18.1 nTPM
Spleen	13.6 nTPM
Stomach	13.5 nTPM
Bone marrow	11.5 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	11.8 nTPM
Lung	14.6 nTPM
Bronchus	9.0 nTPM

Smooth muscle cells	12.9 nTPM
Heart muscle	27.4 nTPM
Adipose tissue	24.9 nTPM
Endometrium	17.8 nTPM
Breast	14.6 nTPM
Ovary	13.7 nTPM
Skeletal muscle	13.0 nTPM
Esophagus	9.3 nTPM
Prostate	9.1 nTPM
Skin	6.3 nTPM
Pancreas	4.4 nTPM
Bronchus	1.9 nTPM

T-cells	13.1 nTPM
Adipose tissue	23.7 nTPM
Bone marrow	20.7 nTPM
Lymph node	19.6 nTPM
Spleen	19.2 nTPM
Stomach	17.3 nTPM
Colon	16.1 nTPM
Skeletal muscle	15.2 nTPM
Liver	14.4 nTPM
Endometrium	13.0 nTPM
Breast	12.9 nTPM
Kidney	10.2 nTPM
Skin	9.2 nTPM
Ovary	8.9 nTPM
Lung	7.6 nTPM
PBMC	7.3 nTPM
Esophagus	6.6 nTPM
Prostate	0.0 nTPM

Basal keratinocytes	6.9 nTPM
Skin	6.9 nTPM

Basal prostatic cells	2.3 nTPM
Prostate	2.3 nTPM

Cholangiocytes	10.0 nTPM
Liver	10.0 nTPM

Cone photoreceptor cells	16.7 nTPM
Eye	16.7 nTPM

Undifferentiated cells	3.8 nTPM
Rectum	5.9 nTPM
Small intestine	4.3 nTPM
Colon	1.1 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