Single cell type - RTL8C - 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.	RTL8C
Gene descriptionⁱ Full gene name according to HGNC.	Retrotransposon Gag like 8C
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.	1

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	Fibroblasts - ECM organization (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 (Distal tubular cells, Cytotrophoblasts, Extravillous trophoblasts, Syncytiotrophoblasts, Endometrial stromal 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	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 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 (Distal tubular cells, Cytotrophoblasts, Extravillous trophoblasts, Syncytiotrophoblasts, Endometrial stromal 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

RTL8C is part of cluster 33 Fibroblasts - ECM organization with confidenceⁱ 1
171 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
PHETA2	PH domain containing endocytic trafficking adaptor 2	0.8280	33
LBHD2	LBH domain containing 2	0.7688	33
CAVIN3	Caveolae associated protein 3	0.7415	33
RXYLT1	Ribitol xylosyltransferase 1	0.7380	7
COL3A1	Collagen type III alpha 1 chain	0.7071	33
CIBAR1	CBY1 interacting BAR domain containing 1	0.6788	33
RTL8A	Retrotransposon Gag like 8A	0.6773	7
MINDY3	MINDY lysine 48 deubiquitinase 3	0.6755	7
TOMM70	Translocase of outer mitochondrial membrane 70	0.6716	7
BRD3OS	BRD3 opposite strand	0.6641	7
COL5A1	Collagen type V alpha 1 chain	0.6629	33
STRA6	Signaling receptor and transporter of retinol STRA6	0.6571	33
SELENOF	Selenoprotein F	0.6494	7
ADAMTS15	ADAM metallopeptidase with thrombospondin type 1 motif 15	0.6460	33
GATD1	Glutamine amidotransferase like class 1 domain containing 1	0.6417	7

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	48.1 nTPM
Adipose tissue	62.4 nTPM
Breast	33.9 nTPM

Alveolar cells type 1	38.5 nTPM
Lung	38.5 nTPM

Alveolar cells type 2	23.6 nTPM
Lung	23.6 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	4.5 nTPM
Kidney	28.5 nTPM
Adipose tissue	10.0 nTPM
Breast	6.6 nTPM
Colon	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Dendritic cells	7.9 nTPM
Adipose tissue	17.1 nTPM
Breast	6.5 nTPM
PBMC	0.0 nTPM

Endothelial cells	24.3 nTPM
Placenta	66.5 nTPM
Lung	65.5 nTPM
Ovary	62.3 nTPM
Pancreas	50.2 nTPM
Breast	48.2 nTPM
Endometrium	47.9 nTPM
Eye	0.0 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Prostate	0.0 nTPM
Testis	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM

Fibroblasts	58.6 nTPM
Placenta	238.6 nTPM
Adipose tissue	166.6 nTPM
Lung	95.0 nTPM
Ovary	80.1 nTPM
Breast	64.0 nTPM
Heart muscle	0.0 nTPM
Prostate	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Stomach	0.0 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Macrophages	16.7 nTPM
Pancreas	53.7 nTPM
Lung	45.5 nTPM
Kidney	38.6 nTPM
Adipose tissue	38.5 nTPM
Ovary	32.5 nTPM
Endometrium	28.0 nTPM
Breast	13.9 nTPM
Prostate	0.0 nTPM
PBMC	0.0 nTPM
Testis	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

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

Plasma cells	1.9 nTPM
Adipose tissue	9.7 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Respiratory ciliated cells	10.2 nTPM
Lung	20.4 nTPM
Bronchus	0.0 nTPM

Smooth muscle cells	38.2 nTPM
Pancreas	138.7 nTPM
Adipose tissue	102.5 nTPM
Endometrium	73.3 nTPM
Breast	53.7 nTPM
Ovary	51.7 nTPM
Heart muscle	0.0 nTPM
Prostate	0.0 nTPM
Skin	0.0 nTPM
Bronchus	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM

T-cells	5.2 nTPM
Lung	22.8 nTPM
Endometrium	22.2 nTPM
Kidney	18.5 nTPM
Adipose tissue	14.8 nTPM
Breast	6.2 nTPM
Ovary	4.5 nTPM
Colon	0.0 nTPM
Liver	0.0 nTPM
Prostate	0.0 nTPM
PBMC	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Collecting duct cells	36.8 nTPM
Kidney	36.8 nTPM

Cytotrophoblasts	111.8 nTPM
Placenta	111.8 nTPM

Exocrine glandular cells	26.3 nTPM
Pancreas	26.3 nTPM

Undifferentiated cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 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