Single cell type - RNF141 - 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.	RNF141
Gene descriptionⁱ Full gene name according to HGNC.	Ring finger protein 141
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.	3

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	Spermatids - Unknown function (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	Group enriched (Early spermatids, Late spermatids)
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	Cell line enhanced (CAPAN-2)
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: Group enriched (Early spermatids, Late spermatids)

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

RNF141 is part of cluster 34 Spermatids - Unknown function with confidenceⁱ 1
366 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
C1orf100	Chromosome 1 open reading frame 100	0.9095	34
TRIM42	Tripartite motif containing 42	0.9052	34
TTLL2	Tubulin tyrosine ligase like 2	0.8994	34
OR8B2	Olfactory receptor family 8 subfamily B member 2	0.8958	34
C2orf73	Chromosome 2 open reading frame 73	0.8866	34
DNTT	DNA nucleotidylexotransferase	0.8752	34
BAG5	BAG cochaperone 5	0.8750	34
PP2D1	Protein phosphatase 2C like domain containing 1	0.8734	34
NPIPB6	Nuclear pore complex interacting protein family member B6	0.8620	34
HSFY1	Heat shock transcription factor Y-linked 1	0.8586	34
AKAP3	A-kinase anchoring protein 3	0.8540	34
OR4N4	Olfactory receptor family 4 subfamily N member 4	0.8349	34
WDR64	WD repeat domain 64	0.8322	34
NT5C1B-RDH14	NT5C1B-RDH14 readthrough	0.8282	34
PLAC8L1	PLAC8 like 1	0.8233	34

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	15.1 nTPM
Breast	16.1 nTPM
Adipose tissue	14.0 nTPM

Alveolar cells type 1	19.2 nTPM
Lung	19.2 nTPM

Alveolar cells type 2	49.2 nTPM
Lung	49.2 nTPM

Astrocytes	14.4 nTPM
Brain	14.4 nTPM

B-cells	39.4 nTPM
PBMC	58.6 nTPM
Bone marrow	55.6 nTPM
Spleen	49.5 nTPM
Kidney	47.6 nTPM
Lymph node	45.2 nTPM
Adipose tissue	36.0 nTPM
Breast	33.4 nTPM
Stomach	28.6 nTPM
Colon	22.3 nTPM
Liver	16.9 nTPM

Dendritic cells	18.8 nTPM
PBMC	39.8 nTPM
Breast	9.5 nTPM
Adipose tissue	7.1 nTPM

Endothelial cells	18.4 nTPM
Pancreas	30.9 nTPM
Ovary	22.9 nTPM
Placenta	22.7 nTPM
Esophagus	22.7 nTPM
Lung	21.8 nTPM
Liver	18.3 nTPM
Testis	18.1 nTPM
Skin	17.6 nTPM
Breast	16.7 nTPM
Heart muscle	15.2 nTPM
Endometrium	14.2 nTPM
Eye	13.7 nTPM
Prostate	12.5 nTPM
Skeletal muscle	10.1 nTPM

Fibroblasts	15.9 nTPM
Heart muscle	30.1 nTPM
Ovary	25.1 nTPM
Esophagus	18.6 nTPM
Breast	15.8 nTPM
Adipose tissue	15.6 nTPM
Stomach	14.9 nTPM
Skin	13.0 nTPM
Placenta	12.1 nTPM
Prostate	11.2 nTPM
Skeletal muscle	11.2 nTPM
Lung	7.8 nTPM

Intestinal goblet cells	28.2 nTPM
Rectum	41.0 nTPM
Small intestine	29.4 nTPM
Colon	14.3 nTPM

Macrophages	52.6 nTPM
Bone marrow	136.2 nTPM
Spleen	121.3 nTPM
Kidney	63.5 nTPM
Ovary	62.5 nTPM
Stomach	61.5 nTPM
Testis	50.0 nTPM
Adipose tissue	48.9 nTPM
Esophagus	48.7 nTPM
Prostate	41.3 nTPM
Skeletal muscle	40.8 nTPM
Endometrium	37.6 nTPM
Pancreas	23.0 nTPM
Breast	22.0 nTPM
Lung	18.0 nTPM
PBMC	13.6 nTPM

Paneth cells	11.2 nTPM
Rectum	23.5 nTPM
Colon	6.5 nTPM
Small intestine	3.7 nTPM

Plasma cells	15.2 nTPM
Esophagus	24.6 nTPM
Spleen	19.2 nTPM
Stomach	14.5 nTPM
Bone marrow	9.9 nTPM
Adipose tissue	7.8 nTPM

Respiratory ciliated cells	48.0 nTPM
Bronchus	71.3 nTPM
Lung	24.8 nTPM

Smooth muscle cells	18.6 nTPM
Bronchus	38.3 nTPM
Heart muscle	24.9 nTPM
Ovary	24.9 nTPM
Pancreas	18.8 nTPM
Breast	16.5 nTPM
Prostate	15.3 nTPM
Endometrium	14.0 nTPM
Adipose tissue	13.9 nTPM
Skeletal muscle	12.8 nTPM
Skin	12.6 nTPM
Esophagus	12.4 nTPM

T-cells	11.7 nTPM
Prostate	19.0 nTPM
Lymph node	14.9 nTPM
PBMC	14.1 nTPM
Bone marrow	13.8 nTPM
Stomach	13.7 nTPM
Spleen	13.6 nTPM
Esophagus	13.1 nTPM
Lung	12.2 nTPM
Skin	11.6 nTPM
Liver	10.4 nTPM
Adipose tissue	10.4 nTPM
Breast	10.3 nTPM
Kidney	9.6 nTPM
Colon	9.5 nTPM
Endometrium	9.5 nTPM
Skeletal muscle	8.5 nTPM
Ovary	4.5 nTPM

Basal prostatic cells	39.7 nTPM
Prostate	39.7 nTPM

Basal respiratory cells	47.7 nTPM
Bronchus	47.7 nTPM

Basal squamous epithelial cells	37.0 nTPM
Esophagus	37.0 nTPM

Collecting duct cells	20.2 nTPM
Kidney	20.2 nTPM

Undifferentiated cells	21.1 nTPM
Rectum	27.1 nTPM
Small intestine	24.4 nTPM
Colon	11.8 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