Single cell type - RORA - 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.	RORA
Gene descriptionⁱ Full gene name according to HGNC.	RAR related orphan receptor A
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Human disease related genes Metabolic proteins Nuclear receptors Plasma proteins Transcription factors
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.	6

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	Astrocytes - Nervous system maintenance (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 (Astrocytes, Oligodendrocyte precursor cells, Inhibitory neurons, Microglial cells, Excitatory neurons)
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	Cell line enhanced (Karpas-707, U-266/70, U-266/84)
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 many
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 (Astrocytes, Oligodendrocyte precursor cells, Inhibitory neurons, Microglial cells, Excitatory neurons)

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

RORA is part of cluster 64 Astrocytes - Nervous system maintenance with confidenceⁱ 1
169 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
PITPNC1	Phosphatidylinositol transfer protein cytoplasmic 1	0.7213	64
TOX	Thymocyte selection associated high mobility group box	0.6519	8
LSAMP	Limbic system associated membrane protein	0.6432	64
WWOX	WW domain containing oxidoreductase	0.6316	42
SOX5	SRY-box transcription factor 5	0.6290	8
METTL24	Methyltransferase like 24	0.6268	8
BCL11B	BAF chromatin remodeling complex subunit BCL11B	0.6191	24
DPP10	Dipeptidyl peptidase like 10	0.6039	8
ARHGEF4	Rho guanine nucleotide exchange factor 4	0.5894	64
SPRY3	Sprouty RTK signaling antagonist 3	0.5852	8
B3GALT1	Beta-1,3-galactosyltransferase 1	0.5767	8
PDE3B	Phosphodiesterase 3B	0.5759	24
BCL2	BCL2 apoptosis regulator	0.5669	64
FYN	FYN proto-oncogene, Src family tyrosine kinase	0.5662	24
SNPH	Syntaphilin	0.5645	8

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	32.5 nTPM
Adipose tissue	46.8 nTPM
Breast	18.3 nTPM

Alveolar cells type 1	41.7 nTPM
Lung	41.7 nTPM

Alveolar cells type 2	31.7 nTPM
Lung	31.7 nTPM

B-cells	23.4 nTPM
Adipose tissue	72.7 nTPM
Breast	38.8 nTPM
PBMC	22.8 nTPM
Colon	22.3 nTPM
Stomach	19.1 nTPM
Bone marrow	17.2 nTPM
Liver	11.9 nTPM
Lymph node	11.3 nTPM
Kidney	9.5 nTPM
Spleen	7.9 nTPM

Basal keratinocytes	185.2 nTPM
Skin	185.2 nTPM

Dendritic cells	185.3 nTPM
Adipose tissue	405.4 nTPM
Breast	130.5 nTPM
PBMC	20.0 nTPM

Endothelial cells	40.8 nTPM
Skin	92.5 nTPM
Heart muscle	70.1 nTPM
Endometrium	62.9 nTPM
Prostate	52.1 nTPM
Ovary	44.5 nTPM
Skeletal muscle	39.5 nTPM
Pancreas	34.7 nTPM
Lung	34.3 nTPM
Esophagus	33.6 nTPM
Liver	33.0 nTPM
Eye	29.1 nTPM
Testis	18.7 nTPM
Breast	17.2 nTPM
Placenta	9.1 nTPM

Fibroblasts	69.4 nTPM
Prostate	172.5 nTPM
Adipose tissue	107.8 nTPM
Skin	101.2 nTPM
Skeletal muscle	91.3 nTPM
Stomach	90.6 nTPM
Esophagus	81.5 nTPM
Heart muscle	47.8 nTPM
Breast	40.8 nTPM
Lung	20.1 nTPM
Ovary	6.7 nTPM
Placenta	3.1 nTPM

Intestinal goblet cells	3.3 nTPM
Colon	6.5 nTPM
Rectum	2.0 nTPM
Small intestine	1.4 nTPM

Macrophages	8.3 nTPM
Breast	37.7 nTPM
Adipose tissue	29.9 nTPM
Lung	14.0 nTPM
Skeletal muscle	8.3 nTPM
Endometrium	6.5 nTPM
Testis	5.8 nTPM
Prostate	5.7 nTPM
Esophagus	4.8 nTPM
Bone marrow	3.7 nTPM
Spleen	3.1 nTPM
Kidney	3.0 nTPM
Ovary	2.5 nTPM
PBMC	0.0 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	0.5 nTPM
Rectum	1.5 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	88.7 nTPM
Adipose tissue	325.1 nTPM
Stomach	54.9 nTPM
Bone marrow	26.4 nTPM
Esophagus	24.6 nTPM
Spleen	12.7 nTPM

Respiratory ciliated cells	16.0 nTPM
Lung	17.5 nTPM
Bronchus	14.4 nTPM

Smooth muscle cells	32.2 nTPM
Prostate	70.4 nTPM
Adipose tissue	53.9 nTPM
Skeletal muscle	38.0 nTPM
Skin	37.0 nTPM
Esophagus	32.5 nTPM
Heart muscle	30.7 nTPM
Ovary	22.3 nTPM
Endometrium	21.5 nTPM
Pancreas	21.0 nTPM
Breast	20.8 nTPM
Bronchus	5.6 nTPM

T-cells	237.6 nTPM
Adipose tissue	641.4 nTPM
Colon	367.3 nTPM
Skin	344.9 nTPM
Stomach	296.5 nTPM
Skeletal muscle	295.8 nTPM
Ovary	273.6 nTPM
Breast	222.4 nTPM
Prostate	213.0 nTPM
PBMC	209.7 nTPM
Spleen	192.5 nTPM
Endometrium	181.8 nTPM
Liver	173.2 nTPM
Kidney	153.4 nTPM
Lymph node	145.5 nTPM
Bone marrow	145.2 nTPM
Lung	97.2 nTPM
Esophagus	85.2 nTPM

Cholangiocytes	30.0 nTPM
Liver	30.0 nTPM

Collecting duct cells	58.8 nTPM
Kidney	58.8 nTPM

Cone photoreceptor cells	454.5 nTPM
Eye	454.5 nTPM

Cytotrophoblasts	0.7 nTPM
Placenta	0.7 nTPM

Undifferentiated cells	2.1 nTPM
Small intestine	2.5 nTPM
Colon	2.3 nTPM
Rectum	1.5 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