Single cell type - CTNNAL1 - 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.	CTNNAL1
Gene descriptionⁱ Full gene name according to HGNC.	Catenin alpha like 1
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	Cell type enhanced (Theca cells)
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	Immune cell enhanced (T-reg)
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 (Theca cells)

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

CTNNAL1 is part of cluster 52 Non-specific - Transcription with confidenceⁱ 1
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
MRFAP1	Morf4 family associated protein 1	0.5200	47
XKR5	XK related 5	0.5020	52
WWTR1	WW domain containing transcription regulator 1	0.4980	14
TCAF1	TRPM8 channel associated factor 1	0.4960	52
NRK	Nik related kinase	0.4739	47
PIR	Pirin	0.4665	47
TNFAIP1	TNF alpha induced protein 1	0.4509	1
EXOC1L	Exocyst complex component 1 like	0.4464	52
AC007040.2	Novel protein	0.4446	47
S100A13	S100 calcium binding protein A13	0.4372	52
PTPN14	Protein tyrosine phosphatase non-receptor type 14	0.4368	14
NR5A1	Nuclear receptor subfamily 5 group A member 1	0.4351	52
EMID1	EMI domain containing 1	0.4334	52
PEG3	Paternally expressed 3	0.4312	52
ITGA9	Integrin subunit alpha 9	0.4299	14

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	50.5 nTPM
Breast	68.3 nTPM
Adipose tissue	32.7 nTPM

Alveolar cells type 1	19.2 nTPM
Lung	19.2 nTPM

Alveolar cells type 2	34.9 nTPM
Lung	34.9 nTPM

Astrocytes	10.7 nTPM
Brain	10.7 nTPM

B-cells	7.1 nTPM
Liver	29.2 nTPM
Breast	14.7 nTPM
Colon	9.6 nTPM
Kidney	4.8 nTPM
Adipose tissue	4.5 nTPM
Stomach	4.1 nTPM
Spleen	2.4 nTPM
Lymph node	2.1 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM

Basal squamous epithelial cells	161.6 nTPM
Esophagus	161.6 nTPM

Dendritic cells	6.6 nTPM
Adipose tissue	10.7 nTPM
Breast	9.1 nTPM
PBMC	0.0 nTPM

Endothelial cells	144.2 nTPM
Testis	308.8 nTPM
Liver	299.9 nTPM
Endometrium	250.8 nTPM
Lung	237.0 nTPM
Skin	160.2 nTPM
Placenta	127.9 nTPM
Prostate	123.5 nTPM
Esophagus	109.0 nTPM
Breast	95.4 nTPM
Heart muscle	92.7 nTPM
Skeletal muscle	87.7 nTPM
Ovary	43.1 nTPM
Pancreas	42.5 nTPM
Eye	40.5 nTPM

Fibroblasts	66.2 nTPM
Heart muscle	141.8 nTPM
Prostate	132.8 nTPM
Ovary	106.5 nTPM
Lung	105.0 nTPM
Placenta	54.7 nTPM
Skin	50.5 nTPM
Stomach	44.6 nTPM
Skeletal muscle	33.0 nTPM
Breast	27.2 nTPM
Adipose tissue	18.4 nTPM
Esophagus	13.7 nTPM

Intestinal goblet cells	20.1 nTPM
Colon	22.1 nTPM
Small intestine	19.3 nTPM
Rectum	18.7 nTPM

Macrophages	17.8 nTPM
PBMC	122.7 nTPM
Prostate	33.2 nTPM
Endometrium	26.3 nTPM
Lung	16.3 nTPM
Adipose tissue	14.5 nTPM
Esophagus	12.6 nTPM
Skeletal muscle	9.8 nTPM
Breast	8.6 nTPM
Ovary	7.9 nTPM
Kidney	6.8 nTPM
Testis	3.5 nTPM
Spleen	3.1 nTPM
Bone marrow	1.2 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	15.1 nTPM
Small intestine	22.5 nTPM
Colon	13.2 nTPM
Rectum	9.7 nTPM

Plasma cells	29.8 nTPM
Spleen	68.3 nTPM
Bone marrow	28.0 nTPM
Stomach	21.8 nTPM
Adipose tissue	18.8 nTPM
Esophagus	12.3 nTPM

Respiratory ciliated cells	52.9 nTPM
Lung	83.1 nTPM
Bronchus	22.7 nTPM

Smooth muscle cells	72.6 nTPM
Ovary	351.3 nTPM
Prostate	81.0 nTPM
Endometrium	60.7 nTPM
Skin	51.6 nTPM
Esophagus	48.0 nTPM
Pancreas	46.9 nTPM
Heart muscle	40.5 nTPM
Breast	34.1 nTPM
Adipose tissue	32.8 nTPM
Skeletal muscle	31.9 nTPM
Bronchus	20.0 nTPM

Cholangiocytes	15.7 nTPM
Liver	15.7 nTPM

Collecting duct cells	29.5 nTPM
Kidney	29.5 nTPM

Cytotrophoblasts	203.3 nTPM
Placenta	203.3 nTPM

Distal tubular cells	131.0 nTPM
Kidney	131.0 nTPM

T-cells	14.7 nTPM
Prostate	47.3 nTPM
Skin	31.8 nTPM
Endometrium	28.3 nTPM
Adipose tissue	25.0 nTPM
Colon	23.3 nTPM
Lung	19.7 nTPM
Esophagus	19.7 nTPM
Breast	17.2 nTPM
Skeletal muscle	7.0 nTPM
Liver	6.0 nTPM
Spleen	4.7 nTPM
Lymph node	4.6 nTPM
Stomach	4.1 nTPM
Kidney	3.4 nTPM
PBMC	2.6 nTPM
Bone marrow	2.5 nTPM
Ovary	2.2 nTPM

Undifferentiated cells	22.0 nTPM
Small intestine	24.9 nTPM
Colon	22.6 nTPM
Rectum	18.5 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