Single cell type - SACM1L - 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.	SACM1L
Gene descriptionⁱ Full gene name according to HGNC.	SAC1 like phosphatidylinositide phosphatase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic proteins
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,Membrane
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	Non-specific - Transcription regulation (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

SACM1L is part of cluster 24 Non-specific - Transcription regulation with confidenceⁱ 1
415 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
GTF3C1	General transcription factor IIIC subunit 1	0.7445	63
MYBL1	MYB proto-oncogene like 1	0.7420	24
PIK3R1	Phosphoinositide-3-kinase regulatory subunit 1	0.7064	24
SYTL3	Synaptotagmin like 3	0.6997	24
IL18RAP	Interleukin 18 receptor accessory protein	0.6835	63
FYN	FYN proto-oncogene, Src family tyrosine kinase	0.6707	24
RNF125	Ring finger protein 125	0.6667	24
AKNA	AT-hook transcription factor	0.6526	63
CNOT6L	CCR4-NOT transcription complex subunit 6 like	0.6483	24
CRTAM	Cytotoxic and regulatory T cell molecule	0.6476	24
RUNX3	RUNX family transcription factor 3	0.6395	24
SH2D2A	SH2 domain containing 2A	0.6352	63
CBLB	Cbl proto-oncogene B	0.6252	24
CCL4	C-C motif chemokine ligand 4	0.6243	63
PARP8	Poly(ADP-ribose) polymerase family member 8	0.6219	24

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	18.4 nTPM
Adipose tissue	20.0 nTPM
Breast	16.8 nTPM

Alveolar cells type 1	28.9 nTPM
Lung	28.9 nTPM

Alveolar cells type 2	37.3 nTPM
Lung	37.3 nTPM

Astrocytes	22.5 nTPM
Brain	22.5 nTPM

B-cells	22.2 nTPM
Stomach	35.4 nTPM
Kidney	33.4 nTPM
Spleen	25.6 nTPM
Adipose tissue	24.6 nTPM
Lymph node	20.9 nTPM
Colon	20.8 nTPM
Liver	17.2 nTPM
Bone marrow	16.4 nTPM
Breast	16.0 nTPM
PBMC	11.5 nTPM

Dendritic cells	55.4 nTPM
Adipose tissue	106.2 nTPM
Breast	48.1 nTPM
PBMC	12.0 nTPM

Endothelial cells	17.6 nTPM
Heart muscle	29.4 nTPM
Eye	23.5 nTPM
Lung	21.8 nTPM
Endometrium	20.0 nTPM
Esophagus	19.1 nTPM
Ovary	17.9 nTPM
Liver	17.4 nTPM
Breast	16.5 nTPM
Testis	16.0 nTPM
Skeletal muscle	16.0 nTPM
Skin	14.0 nTPM
Placenta	11.9 nTPM
Prostate	11.6 nTPM
Pancreas	11.6 nTPM

Fibroblasts	19.5 nTPM
Heart muscle	31.5 nTPM
Stomach	31.2 nTPM
Placenta	22.5 nTPM
Adipose tissue	20.1 nTPM
Skeletal muscle	19.1 nTPM
Esophagus	16.8 nTPM
Skin	16.6 nTPM
Ovary	15.6 nTPM
Prostate	15.2 nTPM
Breast	14.5 nTPM
Lung	11.1 nTPM

Intestinal goblet cells	9.4 nTPM
Rectum	13.2 nTPM
Small intestine	8.6 nTPM
Colon	6.5 nTPM

Macrophages	22.6 nTPM
Stomach	35.1 nTPM
Spleen	27.9 nTPM
PBMC	27.3 nTPM
Testis	25.5 nTPM
Ovary	25.5 nTPM
Adipose tissue	24.6 nTPM
Esophagus	23.6 nTPM
Lung	23.1 nTPM
Skeletal muscle	21.5 nTPM
Bone marrow	21.2 nTPM
Endometrium	20.5 nTPM
Kidney	19.6 nTPM
Breast	17.3 nTPM
Pancreas	12.8 nTPM
Prostate	12.6 nTPM

Paneth cells	20.7 nTPM
Small intestine	26.3 nTPM
Colon	19.7 nTPM
Rectum	16.2 nTPM

Plasma cells	33.2 nTPM
Adipose tissue	76.8 nTPM
Stomach	29.9 nTPM
Bone marrow	26.4 nTPM
Spleen	20.8 nTPM
Esophagus	12.3 nTPM

Respiratory ciliated cells	14.1 nTPM
Bronchus	16.6 nTPM
Lung	11.7 nTPM

Smooth muscle cells	16.6 nTPM
Esophagus	27.9 nTPM
Endometrium	22.8 nTPM
Bronchus	19.9 nTPM
Heart muscle	18.2 nTPM
Adipose tissue	18.1 nTPM
Ovary	13.9 nTPM
Pancreas	13.8 nTPM
Prostate	13.4 nTPM
Breast	12.0 nTPM
Skin	11.5 nTPM
Skeletal muscle	10.9 nTPM

T-cells	44.5 nTPM
Adipose tissue	80.1 nTPM
Endometrium	67.7 nTPM
Stomach	53.4 nTPM
Skin	53.0 nTPM
Spleen	52.8 nTPM
Liver	51.1 nTPM
Bone marrow	50.1 nTPM
Skeletal muscle	45.5 nTPM
Lymph node	44.2 nTPM
Lung	44.0 nTPM
Colon	39.9 nTPM
Kidney	38.3 nTPM
Ovary	37.8 nTPM
Breast	35.7 nTPM
PBMC	29.7 nTPM
Esophagus	19.7 nTPM
Prostate	14.2 nTPM

Basal prostatic cells	9.1 nTPM
Prostate	9.1 nTPM

Basal respiratory cells	14.6 nTPM
Bronchus	14.6 nTPM

Cholangiocytes	14.3 nTPM
Liver	14.3 nTPM

Collecting duct cells	7.3 nTPM
Kidney	7.3 nTPM

Undifferentiated cells	13.6 nTPM
Colon	16.1 nTPM
Rectum	13.3 nTPM
Small intestine	11.3 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