Single cell type - RB1CC1 - 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.	RB1CC1
Gene descriptionⁱ Full gene name according to HGNC.	RB1 inducible coiled-coil 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.	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	Endometrium - 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

RB1CC1 is part of cluster 44 Endometrium - Transcription with confidenceⁱ 1
491 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
GOLGA4	Golgin A4	0.6298	54
ATG14	Autophagy related 14	0.5734	24
GAPVD1	GTPase activating protein and VPS9 domains 1	0.5216	10
ARIH2	Ariadne RBR E3 ubiquitin protein ligase 2	0.5197	13
CLOCK	Clock circadian regulator	0.5090	52
IPO7	Importin 7	0.4977	10
REV1	REV1 DNA directed polymerase	0.4954	52
UBE3A	Ubiquitin protein ligase E3A	0.4940	10
SLMAP	Sarcolemma associated protein	0.4927	54
RIF1	Replication timing regulatory factor 1	0.4853	52
MED13	Mediator complex subunit 13	0.4680	44
FAM20B	FAM20B glycosaminoglycan xylosylkinase	0.4642	6
SPEN	Spen family transcriptional repressor	0.4629	44
SLK	STE20 like kinase	0.4521	22
STRN3	Striatin 3	0.4513	48

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	83.8 nTPM
Adipose tissue	113.9 nTPM
Breast	53.8 nTPM

Alveolar cells type 1	195.5 nTPM
Lung	195.5 nTPM

Alveolar cells type 2	121.7 nTPM
Lung	121.7 nTPM

Astrocytes	73.8 nTPM
Brain	73.8 nTPM

B-cells	66.3 nTPM
Adipose tissue	117.8 nTPM
Colon	97.4 nTPM
Lymph node	84.4 nTPM
PBMC	68.5 nTPM
Stomach	67.3 nTPM
Spleen	60.9 nTPM
Bone marrow	53.2 nTPM
Breast	48.1 nTPM
Liver	41.0 nTPM
Kidney	23.8 nTPM

Dendritic cells	74.2 nTPM
Adipose tissue	134.2 nTPM
Breast	44.5 nTPM
PBMC	43.8 nTPM

Endothelial cells	66.0 nTPM
Endometrium	127.3 nTPM
Prostate	111.4 nTPM
Skeletal muscle	94.6 nTPM
Heart muscle	77.2 nTPM
Lung	74.8 nTPM
Ovary	71.6 nTPM
Esophagus	58.8 nTPM
Skin	54.5 nTPM
Testis	51.3 nTPM
Breast	50.2 nTPM
Liver	44.9 nTPM
Pancreas	42.5 nTPM
Eye	42.1 nTPM
Placenta	22.7 nTPM

Erythroid cells	117.7 nTPM
Liver	192.5 nTPM
Bone marrow	42.9 nTPM

Fibroblasts	78.2 nTPM
Prostate	123.0 nTPM
Heart muscle	109.7 nTPM
Lung	108.4 nTPM
Adipose tissue	103.6 nTPM
Skeletal muscle	84.1 nTPM
Skin	78.1 nTPM
Stomach	71.3 nTPM
Esophagus	64.3 nTPM
Ovary	46.0 nTPM
Breast	42.7 nTPM
Placenta	29.2 nTPM

Intestinal goblet cells	31.9 nTPM
Rectum	35.1 nTPM
Small intestine	33.5 nTPM
Colon	27.1 nTPM

Macrophages	60.5 nTPM
Adipose tissue	114.5 nTPM
Endometrium	88.9 nTPM
Spleen	88.1 nTPM
Skeletal muscle	87.6 nTPM
Lung	83.2 nTPM
Ovary	68.4 nTPM
Stomach	61.5 nTPM
Bone marrow	57.5 nTPM
Prostate	55.1 nTPM
Testis	52.9 nTPM
Esophagus	34.6 nTPM
Breast	33.4 nTPM
Pancreas	30.7 nTPM
PBMC	27.3 nTPM
Kidney	23.4 nTPM

Paneth cells	43.3 nTPM
Colon	65.8 nTPM
Rectum	33.9 nTPM
Small intestine	30.0 nTPM

Plasma cells	86.1 nTPM
Adipose tissue	138.1 nTPM
Stomach	107.3 nTPM
Spleen	81.9 nTPM
Esophagus	55.5 nTPM
Bone marrow	47.7 nTPM

Respiratory ciliated cells	115.3 nTPM
Lung	160.3 nTPM
Bronchus	70.3 nTPM

Smooth muscle cells	76.9 nTPM
Adipose tissue	109.1 nTPM
Heart muscle	106.3 nTPM
Endometrium	100.0 nTPM
Skeletal muscle	99.6 nTPM
Prostate	88.5 nTPM
Ovary	82.7 nTPM
Esophagus	74.4 nTPM
Skin	71.8 nTPM
Breast	46.0 nTPM
Pancreas	35.4 nTPM
Bronchus	32.2 nTPM

Basal keratinocytes	88.3 nTPM
Skin	88.3 nTPM

Basal prostatic cells	60.2 nTPM
Prostate	60.2 nTPM

Basal respiratory cells	32.0 nTPM
Bronchus	32.0 nTPM

Basal squamous epithelial cells	51.2 nTPM
Esophagus	51.2 nTPM

T-cells	66.2 nTPM
Adipose tissue	148.4 nTPM
Endometrium	104.3 nTPM
Skeletal muscle	101.8 nTPM
Colon	99.3 nTPM
Lymph node	80.5 nTPM
Lung	72.9 nTPM
Spleen	64.1 nTPM
Ovary	62.3 nTPM
PBMC	58.9 nTPM
Stomach	57.5 nTPM
Breast	52.2 nTPM
Skin	47.8 nTPM
Bone marrow	45.9 nTPM
Liver	42.7 nTPM
Kidney	32.9 nTPM
Prostate	28.4 nTPM
Esophagus	26.2 nTPM

Undifferentiated cells	27.7 nTPM
Rectum	30.9 nTPM
Small intestine	28.3 nTPM
Colon	24.0 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