Single cell type - GPN3 - 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.	GPN3
Gene descriptionⁱ Full gene name according to HGNC.	GPN-loop GTPase 3
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.	7

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	Spermatocytes - 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 (Spermatocytes)
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 (Spermatocytes)

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

GPN3 is part of cluster 66 Spermatocytes - Spermatogenesis with confidenceⁱ 1
507 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
SPRYD7	SPRY domain containing 7	0.6181	66
GTF2A2	General transcription factor IIA subunit 2	0.5539	66
HIGD2B	HIG1 hypoxia inducible domain family member 2B	0.5382	66
NDUFAF1	NADH:ubiquinone oxidoreductase complex assembly factor 1	0.5327	66
PDE6D	Phosphodiesterase 6D	0.5200	66
HIRIP3	HIRA interacting protein 3	0.5173	12
SNRPC	Small nuclear ribonucleoprotein polypeptide C	0.5094	66
MIP	Major intrinsic protein of lens fiber	0.5079	66
RANBP3	RAN binding protein 3	0.5063	66
THUMPD3	THUMP domain containing 3	0.4916	66
SIGLECL1	SIGLEC family like 1	0.4890	66
SLC6A16	Solute carrier family 6 member 16	0.4878	66
EXOSC9	Exosome component 9	0.4845	66
BLZF1	Basic leucine zipper nuclear factor 1	0.4843	66
C1orf167	Chromosome 1 open reading frame 167	0.4812	66

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	23.8 nTPM
Breast	29.4 nTPM
Adipose tissue	18.1 nTPM

Alveolar cells type 1	25.6 nTPM
Lung	25.6 nTPM

Alveolar cells type 2	34.5 nTPM
Lung	34.5 nTPM

Astrocytes	3.3 nTPM
Brain	3.3 nTPM

B-cells	24.5 nTPM
Kidney	38.1 nTPM
Spleen	33.2 nTPM
Liver	32.2 nTPM
Breast	24.1 nTPM
Colon	23.9 nTPM
PBMC	22.8 nTPM
Stomach	21.8 nTPM
Lymph node	19.8 nTPM
Bone marrow	16.4 nTPM
Adipose tissue	12.6 nTPM

Dendritic cells	26.6 nTPM
PBMC	43.8 nTPM
Breast	22.6 nTPM
Adipose tissue	13.4 nTPM

Endothelial cells	20.8 nTPM
Pancreas	34.7 nTPM
Eye	26.7 nTPM
Prostate	23.7 nTPM
Testis	22.8 nTPM
Placenta	22.7 nTPM
Breast	21.9 nTPM
Endometrium	19.4 nTPM
Skeletal muscle	18.6 nTPM
Ovary	18.5 nTPM
Esophagus	18.5 nTPM
Heart muscle	17.6 nTPM
Skin	17.6 nTPM
Liver	15.6 nTPM
Lung	12.5 nTPM

Fibroblasts	25.4 nTPM
Placenta	41.6 nTPM
Prostate	33.5 nTPM
Adipose tissue	29.9 nTPM
Heart muscle	28.7 nTPM
Breast	28.4 nTPM
Esophagus	25.5 nTPM
Ovary	23.8 nTPM
Skeletal muscle	23.3 nTPM
Skin	20.8 nTPM
Lung	12.3 nTPM
Stomach	11.9 nTPM

Intestinal goblet cells	9.1 nTPM
Rectum	10.2 nTPM
Colon	9.3 nTPM
Small intestine	8.0 nTPM

Macrophages	33.2 nTPM
Kidney	52.2 nTPM
Ovary	47.5 nTPM
Testis	41.8 nTPM
Breast	40.8 nTPM
Lung	39.4 nTPM
Pancreas	38.3 nTPM
Bone marrow	37.5 nTPM
Endometrium	32.4 nTPM
Spleen	31.1 nTPM
Esophagus	28.3 nTPM
PBMC	27.3 nTPM
Prostate	25.3 nTPM
Stomach	23.5 nTPM
Skeletal muscle	19.7 nTPM
Adipose tissue	12.3 nTPM

Paneth cells	11.0 nTPM
Small intestine	15.0 nTPM
Rectum	11.6 nTPM
Colon	6.5 nTPM

Plasma cells	20.9 nTPM
Spleen	41.3 nTPM
Bone marrow	29.7 nTPM
Stomach	20.9 nTPM
Adipose tissue	6.4 nTPM
Esophagus	6.1 nTPM

Respiratory ciliated cells	34.2 nTPM
Lung	39.4 nTPM
Bronchus	29.1 nTPM

Smooth muscle cells	35.3 nTPM
Pancreas	51.7 nTPM
Heart muscle	48.9 nTPM
Breast	42.6 nTPM
Adipose tissue	39.0 nTPM
Ovary	38.0 nTPM
Skeletal muscle	37.4 nTPM
Esophagus	34.1 nTPM
Prostate	30.3 nTPM
Skin	27.6 nTPM
Endometrium	21.5 nTPM
Bronchus	16.7 nTPM

T-cells	19.2 nTPM
Kidney	30.7 nTPM
Lung	30.4 nTPM
Prostate	28.4 nTPM
Breast	25.1 nTPM
PBMC	20.9 nTPM
Lymph node	19.7 nTPM
Bone marrow	19.4 nTPM
Endometrium	18.6 nTPM
Skin	18.5 nTPM
Skeletal muscle	18.2 nTPM
Adipose tissue	17.8 nTPM
Spleen	16.8 nTPM
Stomach	15.9 nTPM
Ovary	15.6 nTPM
Liver	15.5 nTPM
Colon	14.7 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	29.8 nTPM
Skin	29.8 nTPM

Basal prostatic cells	49.3 nTPM
Prostate	49.3 nTPM

Basal respiratory cells	57.9 nTPM
Bronchus	57.9 nTPM

Cholangiocytes	20.0 nTPM
Liver	20.0 nTPM

Undifferentiated cells	13.7 nTPM
Small intestine	17.2 nTPM
Rectum	12.2 nTPM
Colon	11.8 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