Single cell type - RRP9 - 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.	RRP9
Gene descriptionⁱ Full gene name according to HGNC.	Ribosomal RNA processing 9, U3 small nucleolar RNA binding protein
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	Non-specific - 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	Cell type enhanced (Basal keratinocytes)
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	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 (Basal keratinocytes)

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

RRP9 is part of cluster 10 Non-specific - Unknown function with confidenceⁱ 1
482 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
EMG1	EMG1 N1-specific pseudouridine methyltransferase	0.8252	10
POLR1C	RNA polymerase I and III subunit C	0.8110	10
ANGPTL6	Angiopoietin like 6	0.7969	10
CCT5	Chaperonin containing TCP1 subunit 5	0.7957	10
ESD	Esterase D	0.7950	10
GSTA5	Glutathione S-transferase alpha 5	0.7847	10
ZMAT5	Zinc finger matrin-type 5	0.7845	10
PARL	Presenilin associated rhomboid like	0.7766	10
WDR12	WD repeat domain 12	0.7706	10
NUTF2	Nuclear transport factor 2	0.7644	10
COPS6	COP9 signalosome subunit 6	0.7533	10
GNG8	G protein subunit gamma 8	0.7504	10
TMEM60	Transmembrane protein 60	0.7442	10
POTEM	POTE ankyrin domain family member M	0.7418	10
PSMB2	Proteasome 20S subunit beta 2	0.7327	10

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	9.2 nTPM
Breast	10.6 nTPM
Adipose tissue	7.7 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	10.5 nTPM
Lung	10.5 nTPM

Astrocytes	3.6 nTPM
Brain	3.6 nTPM

B-cells	15.2 nTPM
Kidney	23.8 nTPM
Liver	23.5 nTPM
Stomach	18.2 nTPM
Bone marrow	18.0 nTPM
Spleen	17.3 nTPM
Lymph node	14.9 nTPM
PBMC	11.5 nTPM
Colon	11.2 nTPM
Adipose tissue	7.0 nTPM
Breast	6.6 nTPM

Dendritic cells	14.8 nTPM
PBMC	20.0 nTPM
Breast	16.8 nTPM
Adipose tissue	7.6 nTPM

Endothelial cells	12.7 nTPM
Pancreas	38.6 nTPM
Placenta	20.5 nTPM
Skin	20.0 nTPM
Prostate	17.3 nTPM
Esophagus	16.4 nTPM
Ovary	10.8 nTPM
Skeletal muscle	10.2 nTPM
Endometrium	9.1 nTPM
Testis	8.9 nTPM
Breast	8.4 nTPM
Eye	8.1 nTPM
Heart muscle	4.8 nTPM
Lung	3.1 nTPM
Liver	1.8 nTPM

Fibroblasts	12.6 nTPM
Placenta	19.8 nTPM
Skin	18.6 nTPM
Ovary	18.5 nTPM
Prostate	18.2 nTPM
Skeletal muscle	11.5 nTPM
Esophagus	11.2 nTPM
Adipose tissue	10.8 nTPM
Breast	10.4 nTPM
Stomach	8.9 nTPM
Lung	7.8 nTPM
Heart muscle	2.8 nTPM

Intestinal goblet cells	7.2 nTPM
Rectum	8.4 nTPM
Colon	7.8 nTPM
Small intestine	5.3 nTPM

Macrophages	8.7 nTPM
Pancreas	25.5 nTPM
PBMC	13.6 nTPM
Bone marrow	11.3 nTPM
Breast	9.2 nTPM
Testis	8.8 nTPM
Ovary	8.4 nTPM
Kidney	8.3 nTPM
Prostate	6.9 nTPM
Endometrium	6.8 nTPM
Spleen	6.2 nTPM
Stomach	5.9 nTPM
Lung	5.2 nTPM
Adipose tissue	5.0 nTPM
Esophagus	4.8 nTPM
Skeletal muscle	4.7 nTPM

Paneth cells	10.3 nTPM
Rectum	13.4 nTPM
Colon	9.9 nTPM
Small intestine	7.5 nTPM

Plasma cells	11.6 nTPM
Bone marrow	16.5 nTPM
Spleen	15.7 nTPM
Esophagus	12.3 nTPM
Stomach	9.6 nTPM
Adipose tissue	3.9 nTPM

Respiratory ciliated cells	11.9 nTPM
Bronchus	13.5 nTPM
Lung	10.2 nTPM

Smooth muscle cells	36.7 nTPM
Bronchus	252.0 nTPM
Pancreas	45.3 nTPM
Prostate	21.3 nTPM
Skin	20.2 nTPM
Ovary	17.6 nTPM
Skeletal muscle	13.5 nTPM
Breast	11.4 nTPM
Endometrium	7.5 nTPM
Adipose tissue	6.2 nTPM
Esophagus	6.2 nTPM
Heart muscle	2.7 nTPM

T-cells	12.5 nTPM
Skin	20.7 nTPM
Ovary	20.1 nTPM
Kidney	17.8 nTPM
Bone marrow	16.8 nTPM
Lymph node	16.1 nTPM
Stomach	14.7 nTPM
Spleen	13.6 nTPM
Breast	13.2 nTPM
Liver	13.1 nTPM
PBMC	12.6 nTPM
Colon	11.9 nTPM
Skeletal muscle	10.2 nTPM
Lung	7.6 nTPM
Endometrium	7.2 nTPM
Adipose tissue	6.7 nTPM
Esophagus	6.6 nTPM
Prostate	4.7 nTPM

Basal keratinocytes	66.8 nTPM
Skin	66.8 nTPM

Basal prostatic cells	27.1 nTPM
Prostate	27.1 nTPM

Basal respiratory cells	29.7 nTPM
Bronchus	29.7 nTPM

Cholangiocytes	10.0 nTPM
Liver	10.0 nTPM

Undifferentiated cells	18.9 nTPM
Colon	24.1 nTPM
Small intestine	17.2 nTPM
Rectum	15.4 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