Single cell type - ALKBH3 - 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.	ALKBH3
Gene descriptionⁱ Full gene name according to HGNC.	AlkB homolog 3, alpha-ketoglutarate dependent dioxygenase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes
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	Spermatids - 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 (Late spermatids, Early 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 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 (Late spermatids, Early 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

ALKBH3 is part of cluster 34 Spermatids - Unknown function with confidenceⁱ 1
366 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
ZNF345	Zinc finger protein 345	0.6671	34
TBC1D26	TBC1 domain family member 26	0.6613	34
ADCY10	Adenylate cyclase 10	0.6557	34
EEF2KMT	Eukaryotic elongation factor 2 lysine methyltransferase	0.6512	34
SPATA45	Spermatogenesis associated 45	0.6509	34
KIF2B	Kinesin family member 2B	0.6504	34
TSKS	Testis specific serine kinase substrate	0.6474	34
CCDC159	Coiled-coil domain containing 159	0.6455	34
TIMD4	T cell immunoglobulin and mucin domain containing 4	0.6444	34
DEFB134	Defensin beta 134	0.6444	34
TAAR2	Trace amine associated receptor 2	0.6410	34
TCP10L	T-complex 10 like	0.6408	34
MSMP	Microseminoprotein, prostate associated	0.6405	34
FAM229A	Family with sequence similarity 229 member A	0.6396	34
ROPN1B	Rhophilin associated tail protein 1B	0.6391	34

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	12.0 nTPM
Breast	15.9 nTPM
Adipose tissue	8.2 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	10.9 nTPM
Lung	10.9 nTPM

Astrocytes	15.0 nTPM
Brain	15.0 nTPM

B-cells	12.6 nTPM
Liver	27.2 nTPM
Kidney	23.8 nTPM
Breast	17.3 nTPM
PBMC	14.3 nTPM
Bone marrow	12.3 nTPM
Spleen	9.0 nTPM
Lymph node	8.9 nTPM
Adipose tissue	5.5 nTPM
Stomach	4.5 nTPM
Colon	3.2 nTPM

Dendritic cells	13.7 nTPM
Breast	16.8 nTPM
PBMC	16.0 nTPM
Adipose tissue	8.4 nTPM

Endothelial cells	14.6 nTPM
Pancreas	30.9 nTPM
Lung	21.8 nTPM
Esophagus	20.0 nTPM
Skin	15.8 nTPM
Ovary	15.8 nTPM
Heart muscle	15.2 nTPM
Liver	13.7 nTPM
Breast	13.1 nTPM
Testis	13.0 nTPM
Skeletal muscle	11.8 nTPM
Eye	9.7 nTPM
Placenta	8.6 nTPM
Prostate	7.7 nTPM
Endometrium	7.4 nTPM

Fibroblasts	14.0 nTPM
Esophagus	20.9 nTPM
Lung	17.9 nTPM
Breast	16.7 nTPM
Stomach	16.3 nTPM
Ovary	16.1 nTPM
Adipose tissue	15.4 nTPM
Skin	13.0 nTPM
Skeletal muscle	12.4 nTPM
Placenta	10.9 nTPM
Heart muscle	7.5 nTPM
Prostate	6.7 nTPM

Intestinal goblet cells	11.3 nTPM
Small intestine	15.1 nTPM
Rectum	13.0 nTPM
Colon	5.8 nTPM

Macrophages	13.1 nTPM
Pancreas	35.7 nTPM
Lung	25.1 nTPM
Bone marrow	17.5 nTPM
Prostate	16.0 nTPM
Ovary	14.6 nTPM
Breast	13.8 nTPM
Esophagus	12.6 nTPM
Testis	12.2 nTPM
Endometrium	10.9 nTPM
Kidney	9.9 nTPM
Stomach	8.8 nTPM
Adipose tissue	7.2 nTPM
Skeletal muscle	6.7 nTPM
Spleen	6.2 nTPM
PBMC	0.0 nTPM

Paneth cells	8.6 nTPM
Rectum	14.9 nTPM
Small intestine	7.5 nTPM
Colon	3.3 nTPM

Plasma cells	12.4 nTPM
Spleen	24.5 nTPM
Stomach	17.5 nTPM
Bone marrow	14.8 nTPM
Adipose tissue	5.2 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	14.0 nTPM
Lung	17.5 nTPM
Bronchus	10.5 nTPM

Smooth muscle cells	15.3 nTPM
Pancreas	27.2 nTPM
Heart muscle	24.1 nTPM
Esophagus	23.3 nTPM
Prostate	16.6 nTPM
Breast	15.6 nTPM
Skin	15.3 nTPM
Ovary	13.9 nTPM
Adipose tissue	9.9 nTPM
Skeletal muscle	8.7 nTPM
Bronchus	7.6 nTPM
Endometrium	6.7 nTPM

T-cells	12.7 nTPM
Liver	25.1 nTPM
Kidney	22.6 nTPM
Bone marrow	17.6 nTPM
PBMC	15.7 nTPM
Lymph node	15.3 nTPM
Lung	15.2 nTPM
Breast	13.3 nTPM
Esophagus	13.1 nTPM
Spleen	12.9 nTPM
Skeletal muscle	11.0 nTPM
Colon	10.0 nTPM
Stomach	9.9 nTPM
Skin	8.8 nTPM
Endometrium	8.5 nTPM
Ovary	6.7 nTPM
Adipose tissue	5.3 nTPM
Prostate	4.7 nTPM

Basal keratinocytes	10.3 nTPM
Skin	10.3 nTPM

Basal respiratory cells	16.5 nTPM
Bronchus	16.5 nTPM

Basal squamous epithelial cells	10.8 nTPM
Esophagus	10.8 nTPM

Collecting duct cells	16.5 nTPM
Kidney	16.5 nTPM

Undifferentiated cells	12.5 nTPM
Rectum	15.2 nTPM
Small intestine	14.9 nTPM
Colon	7.5 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