Single cell type - SLAIN2 - 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.	SLAIN2
Gene descriptionⁱ Full gene name according to HGNC.	SLAIN motif family member 2
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 - Spermatogenesis (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 (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	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 (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

SLAIN2 is part of cluster 25 Spermatids - Spermatogenesis with confidenceⁱ 1
458 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
CCNY	Cyclin Y	0.6799	25
RAD23B	RAD23 homolog B, nucleotide excision repair protein	0.6796	25
PTP4A1	Protein tyrosine phosphatase 4A1	0.6740	25
PAFAH1B1	Platelet activating factor acetylhydrolase 1b regulatory subunit 1	0.6697	25
TTLL10	Tubulin tyrosine ligase like 10	0.6685	25
SLC10A6	Solute carrier family 10 member 6	0.6668	25
RGS22	Regulator of G protein signaling 22	0.6622	25
PPP2R5A	Protein phosphatase 2 regulatory subunit B'alpha	0.6592	25
SPATA18	Spermatogenesis associated 18	0.6535	25
CCDC187	Coiled-coil domain containing 187	0.6526	25
METAP1	Methionyl aminopeptidase 1	0.6520	25
KRT34	Keratin 34	0.6487	25
ZFAND3	Zinc finger AN1-type containing 3	0.6466	25
SMG9	SMG9 nonsense mediated mRNA decay factor	0.6456	25
DHX57	DExH-box helicase 57	0.6398	25

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	37.2 nTPM
Adipose tissue	42.4 nTPM
Breast	32.0 nTPM

Alveolar cells type 1	54.5 nTPM
Lung	54.5 nTPM

Alveolar cells type 2	38.7 nTPM
Lung	38.7 nTPM

Astrocytes	43.8 nTPM
Brain	43.8 nTPM

B-cells	27.9 nTPM
Lymph node	40.3 nTPM
Adipose tissue	38.1 nTPM
Spleen	32.2 nTPM
Stomach	31.4 nTPM
Colon	28.7 nTPM
Liver	23.9 nTPM
Kidney	23.8 nTPM
Bone marrow	23.7 nTPM
Breast	20.0 nTPM
PBMC	17.1 nTPM

Dendritic cells	31.7 nTPM
Adipose tissue	51.9 nTPM
Breast	31.3 nTPM
PBMC	12.0 nTPM

Endothelial cells	28.8 nTPM
Endometrium	44.6 nTPM
Prostate	37.0 nTPM
Heart muscle	33.4 nTPM
Skeletal muscle	32.0 nTPM
Esophagus	31.0 nTPM
Ovary	30.7 nTPM
Breast	30.3 nTPM
Liver	29.3 nTPM
Eye	29.1 nTPM
Skin	28.6 nTPM
Lung	24.9 nTPM
Testis	24.3 nTPM
Pancreas	15.5 nTPM
Placenta	13.1 nTPM

Fibroblasts	31.9 nTPM
Prostate	46.6 nTPM
Heart muscle	37.9 nTPM
Skin	37.2 nTPM
Skeletal muscle	36.9 nTPM
Adipose tissue	36.1 nTPM
Stomach	31.2 nTPM
Esophagus	30.3 nTPM
Breast	29.4 nTPM
Lung	25.7 nTPM
Ovary	21.2 nTPM
Placenta	17.7 nTPM

Intestinal goblet cells	34.5 nTPM
Colon	37.8 nTPM
Rectum	34.8 nTPM
Small intestine	30.8 nTPM

Macrophages	29.2 nTPM
Adipose tissue	42.5 nTPM
Esophagus	42.5 nTPM
Spleen	36.3 nTPM
Skeletal muscle	36.2 nTPM
Stomach	35.1 nTPM
Lung	35.0 nTPM
Endometrium	34.8 nTPM
Ovary	30.7 nTPM
Bone marrow	27.5 nTPM
Testis	27.4 nTPM
Pancreas	25.5 nTPM
Kidney	24.9 nTPM
Breast	21.7 nTPM
Prostate	18.4 nTPM
PBMC	0.0 nTPM

Paneth cells	27.9 nTPM
Colon	32.9 nTPM
Rectum	32.1 nTPM
Small intestine	18.8 nTPM

Plasma cells	26.2 nTPM
Adipose tissue	38.0 nTPM
Esophagus	30.7 nTPM
Spleen	23.7 nTPM
Stomach	22.0 nTPM
Bone marrow	16.5 nTPM

Respiratory ciliated cells	85.1 nTPM
Bronchus	88.6 nTPM
Lung	81.6 nTPM

Smooth muscle cells	43.1 nTPM
Esophagus	62.0 nTPM
Heart muscle	59.8 nTPM
Endometrium	58.6 nTPM
Adipose tissue	42.8 nTPM
Ovary	40.9 nTPM
Bronchus	39.7 nTPM
Pancreas	36.3 nTPM
Prostate	36.2 nTPM
Skeletal muscle	34.7 nTPM
Skin	33.9 nTPM
Breast	29.6 nTPM

T-cells	35.0 nTPM
Adipose tissue	52.8 nTPM
Stomach	50.7 nTPM
Endometrium	47.7 nTPM
Skeletal muscle	44.0 nTPM
Lymph node	42.0 nTPM
Colon	41.8 nTPM
Skin	36.4 nTPM
Ovary	33.3 nTPM
Prostate	33.1 nTPM
Bone marrow	33.0 nTPM
PBMC	32.4 nTPM
Breast	31.8 nTPM
Spleen	31.2 nTPM
Esophagus	26.2 nTPM
Liver	22.5 nTPM
Lung	19.7 nTPM
Kidney	16.4 nTPM

Basal keratinocytes	84.2 nTPM
Skin	84.2 nTPM

Basal prostatic cells	50.6 nTPM
Prostate	50.6 nTPM

Basal respiratory cells	32.6 nTPM
Bronchus	32.6 nTPM

Cholangiocytes	18.6 nTPM
Liver	18.6 nTPM

Undifferentiated cells	25.6 nTPM
Colon	34.4 nTPM
Rectum	25.2 nTPM
Small intestine	17.3 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