Single cell type - SNX12 - 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.	SNX12
Gene descriptionⁱ Full gene name according to HGNC.	Sorting nexin 12
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.	4

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	Cytotrophoblasts - 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	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

SNX12 is part of cluster 47 Cytotrophoblasts - Unknown function with confidenceⁱ 1
226 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
TEAD4	TEA domain transcription factor 4	0.5537	47
RNPEP	Arginyl aminopeptidase	0.5501	45
SLC39A1	Solute carrier family 39 member 1	0.5470	47
TNIP2	TNFAIP3 interacting protein 2	0.5456	45
FAM3B	FAM3 metabolism regulating signaling molecule B	0.5132	45
FADD	Fas associated via death domain	0.5048	47
PUDP	Pseudouridine 5'-phosphatase	0.4865	47
SLC6A4	Solute carrier family 6 member 4	0.4845	47
DOLPP1	Dolichyldiphosphatase 1	0.4834	45
SLX1A	SLX1 homolog A, structure-specific endonuclease subunit	0.4830	45
BTNL3	Butyrophilin like 3	0.4781	45
GCNT4	Glucosaminyl (N-acetyl) transferase 4	0.4766	47
MRFAP1	Morf4 family associated protein 1	0.4765	47
CDIPT	CDP-diacylglycerol--inositol 3-phosphatidyltransferase	0.4757	47
CFL1	Cofilin 1	0.4752	16

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	12.2 nTPM
Breast	13.2 nTPM
Adipose tissue	11.0 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	6.7 nTPM
Lung	6.7 nTPM

Astrocytes	2.9 nTPM
Brain	2.9 nTPM

B-cells	11.8 nTPM
Colon	19.2 nTPM
PBMC	17.1 nTPM
Kidney	14.3 nTPM
Spleen	13.5 nTPM
Bone marrow	11.5 nTPM
Stomach	11.3 nTPM
Lymph node	11.0 nTPM
Liver	7.6 nTPM
Breast	6.6 nTPM
Adipose tissue	6.0 nTPM

Dendritic cells	5.6 nTPM
Adipose tissue	6.6 nTPM
Breast	6.2 nTPM
PBMC	4.0 nTPM

Endothelial cells	16.8 nTPM
Pancreas	27.0 nTPM
Esophagus	24.7 nTPM
Ovary	23.5 nTPM
Testis	21.0 nTPM
Liver	20.2 nTPM
Skin	19.5 nTPM
Placenta	19.4 nTPM
Prostate	15.7 nTPM
Breast	15.1 nTPM
Skeletal muscle	12.7 nTPM
Eye	12.2 nTPM
Heart muscle	12.0 nTPM
Endometrium	11.6 nTPM
Lung	0.0 nTPM

Fibroblasts	13.5 nTPM
Heart muscle	21.9 nTPM
Placenta	19.8 nTPM
Esophagus	16.9 nTPM
Stomach	16.3 nTPM
Ovary	14.0 nTPM
Skin	12.8 nTPM
Breast	10.8 nTPM
Prostate	10.5 nTPM
Skeletal muscle	10.2 nTPM
Adipose tissue	9.0 nTPM
Lung	6.7 nTPM

Intestinal goblet cells	16.8 nTPM
Rectum	22.3 nTPM
Small intestine	22.2 nTPM
Colon	5.8 nTPM

Macrophages	12.8 nTPM
Pancreas	33.2 nTPM
Prostate	19.5 nTPM
Testis	18.6 nTPM
Kidney	17.5 nTPM
Bone marrow	16.3 nTPM
Ovary	14.7 nTPM
Esophagus	12.6 nTPM
Spleen	10.4 nTPM
Lung	9.4 nTPM
Endometrium	9.2 nTPM
Breast	8.8 nTPM
Adipose tissue	8.2 nTPM
Skeletal muscle	7.5 nTPM
Stomach	5.9 nTPM
PBMC	0.0 nTPM

Paneth cells	9.0 nTPM
Rectum	20.1 nTPM
Small intestine	3.7 nTPM
Colon	3.3 nTPM

Plasma cells	5.9 nTPM
Bone marrow	9.9 nTPM
Spleen	8.1 nTPM
Stomach	6.3 nTPM
Adipose tissue	5.2 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	3.4 nTPM
Bronchus	5.4 nTPM
Lung	1.5 nTPM

Smooth muscle cells	14.8 nTPM
Pancreas	30.2 nTPM
Esophagus	27.9 nTPM
Prostate	16.2 nTPM
Breast	15.4 nTPM
Skin	14.0 nTPM
Bronchus	11.4 nTPM
Skeletal muscle	11.1 nTPM
Endometrium	10.7 nTPM
Ovary	9.8 nTPM
Adipose tissue	8.5 nTPM
Heart muscle	7.6 nTPM

T-cells	10.1 nTPM
Prostate	28.4 nTPM
Bone marrow	14.7 nTPM
Colon	14.2 nTPM
Stomach	13.0 nTPM
Liver	12.5 nTPM
Kidney	12.3 nTPM
Skin	11.1 nTPM
Spleen	10.7 nTPM
PBMC	10.6 nTPM
Lymph node	8.6 nTPM
Esophagus	6.6 nTPM
Breast	6.5 nTPM
Adipose tissue	6.4 nTPM
Endometrium	5.5 nTPM
Ovary	4.5 nTPM
Skeletal muscle	4.2 nTPM
Lung	1.5 nTPM

Basal keratinocytes	15.3 nTPM
Skin	15.3 nTPM

Basal prostatic cells	22.5 nTPM
Prostate	22.5 nTPM

Basal respiratory cells	17.2 nTPM
Bronchus	17.2 nTPM

Cholangiocytes	21.5 nTPM
Liver	21.5 nTPM

Undifferentiated cells	16.5 nTPM
Small intestine	21.7 nTPM
Rectum	19.9 nTPM
Colon	7.9 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