Single cell type - SNX21 - 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.	SNX21
Gene descriptionⁱ Full gene name according to HGNC.	Sorting nexin family member 21
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	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 (Theca 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	Group enriched (eosinophil, basophil, intermediate monocyte, non-classical monocyte, classical monocyte)
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 some
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 (EFO-21, PC-3, U-87 MG)
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 (Theca 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

SNX21 is part of cluster 50 Fibroblasts - ECM organization with confidenceⁱ 1
441 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
DCN	Decorin	0.6741	50
S100A13	S100 calcium binding protein A13	0.6611	52
ACKR4	Atypical chemokine receptor 4	0.6533	50
CTSK	Cathepsin K	0.6482	50
FBLN5	Fibulin 5	0.6446	50
OLFML1	Olfactomedin like 1	0.6389	50
CXCL14	C-X-C motif chemokine ligand 14	0.6379	33
PLAC9	Placenta associated 9	0.6378	50
CFD	Complement factor D	0.6344	50
COL1A2	Collagen type I alpha 2 chain	0.6313	33
COL6A2	Collagen type VI alpha 2 chain	0.6301	33
AEBP1	AE binding protein 1	0.6298	50
TMEM35A	Transmembrane protein 35A	0.6291	52
RCN3	Reticulocalbin 3	0.6273	33
COL6A1	Collagen type VI alpha 1 chain	0.6251	33

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	11.1 nTPM
Breast	12.6 nTPM
Adipose tissue	9.7 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	8.3 nTPM
Lung	8.3 nTPM

Astrocytes	25.1 nTPM
Brain	25.1 nTPM

B-cells	1.0 nTPM
Breast	2.6 nTPM
Bone marrow	2.5 nTPM
Liver	1.8 nTPM
PBMC	1.4 nTPM
Spleen	1.0 nTPM
Lymph node	0.8 nTPM
Stomach	0.5 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Adipose tissue	0.0 nTPM

Dendritic cells	0.4 nTPM
Breast	0.7 nTPM
Adipose tissue	0.5 nTPM
PBMC	0.0 nTPM

Endothelial cells	10.3 nTPM
Eye	22.7 nTPM
Ovary	16.2 nTPM
Placenta	15.9 nTPM
Testis	13.3 nTPM
Breast	11.9 nTPM
Skin	10.8 nTPM
Liver	10.1 nTPM
Endometrium	8.7 nTPM
Pancreas	7.7 nTPM
Skeletal muscle	7.7 nTPM
Lung	6.2 nTPM
Prostate	5.4 nTPM
Esophagus	4.2 nTPM
Heart muscle	3.8 nTPM

Fibroblasts	37.0 nTPM
Adipose tissue	75.2 nTPM
Breast	56.7 nTPM
Skin	50.1 nTPM
Placenta	46.0 nTPM
Esophagus	44.4 nTPM
Skeletal muscle	44.2 nTPM
Stomach	37.1 nTPM
Ovary	19.4 nTPM
Prostate	15.2 nTPM
Heart muscle	13.2 nTPM
Lung	5.6 nTPM

Intestinal goblet cells	9.2 nTPM
Small intestine	12.9 nTPM
Rectum	9.8 nTPM
Colon	5.0 nTPM

Macrophages	5.4 nTPM
PBMC	13.6 nTPM
Kidney	9.9 nTPM
Pancreas	7.7 nTPM
Esophagus	6.3 nTPM
Skeletal muscle	6.0 nTPM
Stomach	5.9 nTPM
Spleen	5.2 nTPM
Ovary	5.1 nTPM
Bone marrow	5.0 nTPM
Endometrium	4.8 nTPM
Lung	3.9 nTPM
Adipose tissue	2.9 nTPM
Breast	2.3 nTPM
Prostate	2.2 nTPM
Testis	0.6 nTPM

Paneth cells	5.9 nTPM
Colon	13.2 nTPM
Rectum	4.6 nTPM
Small intestine	0.0 nTPM

Plasma cells	0.8 nTPM
Stomach	1.4 nTPM
Adipose tissue	1.3 nTPM
Spleen	1.3 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	6.6 nTPM
Lung	7.3 nTPM
Bronchus	6.0 nTPM

Smooth muscle cells	20.1 nTPM
Esophagus	29.4 nTPM
Breast	28.8 nTPM
Prostate	28.4 nTPM
Skin	26.5 nTPM
Endometrium	24.9 nTPM
Adipose tissue	22.6 nTPM
Pancreas	22.0 nTPM
Skeletal muscle	17.6 nTPM
Ovary	12.0 nTPM
Bronchus	4.6 nTPM
Heart muscle	4.1 nTPM

T-cells	2.2 nTPM
Skin	10.5 nTPM
Prostate	4.7 nTPM
Ovary	4.5 nTPM
Endometrium	4.1 nTPM
Skeletal muscle	2.3 nTPM
Breast	2.2 nTPM
Colon	1.9 nTPM
PBMC	1.6 nTPM
Lung	1.5 nTPM
Bone marrow	1.0 nTPM
Liver	0.9 nTPM
Stomach	0.9 nTPM
Kidney	0.7 nTPM
Spleen	0.5 nTPM
Lymph node	0.4 nTPM
Adipose tissue	0.3 nTPM
Esophagus	0.0 nTPM

Basal respiratory cells	6.4 nTPM
Bronchus	6.4 nTPM

Basal squamous epithelial cells	8.6 nTPM
Esophagus	8.6 nTPM

Cholangiocytes	7.2 nTPM
Liver	7.2 nTPM

Collecting duct cells	5.5 nTPM
Kidney	5.5 nTPM

Undifferentiated cells	7.0 nTPM
Rectum	8.6 nTPM
Small intestine	7.3 nTPM
Colon	5.2 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