Single cell type - GTF2A1 - 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.	GTF2A1
Gene descriptionⁱ Full gene name according to HGNC.	General transcription factor IIA subunit 1
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.	2

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	Early 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	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	Immune cell enhanced (basophil)
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 many
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

GTF2A1 is part of cluster 29 Early spermatids - Spermatogenesis with confidenceⁱ 1
337 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
KLHL11	Kelch like family member 11	0.5494	29
CEP76	Centrosomal protein 76	0.5395	29
CDKN3	Cyclin dependent kinase inhibitor 3	0.5282	29
FAM8A1	Family with sequence similarity 8 member A1	0.5238	29
AASDHPPT	Aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase	0.5220	29
ZNF829	Zinc finger protein 829	0.5180	29
C2orf66	Chromosome 2 open reading frame 66	0.5128	29
GOLGA6L1	Golgin A6 family like 1	0.5090	29
PRAMEF2	PRAME family member 2	0.5081	29
FEM1B	Fem-1 homolog B	0.5018	29
ZC3H14	Zinc finger CCCH-type containing 14	0.5002	29
SPAG5	Sperm associated antigen 5	0.4986	12
THAP6	THAP domain containing 6	0.4917	29
CREB1	CAMP responsive element binding protein 1	0.4914	29
FAM209A	Family with sequence similarity 209 member A	0.4891	29

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	27.0 nTPM
Breast	28.9 nTPM
Adipose tissue	25.2 nTPM

Alveolar cells type 1	19.2 nTPM
Lung	19.2 nTPM

Alveolar cells type 2	13.6 nTPM
Lung	13.6 nTPM

Astrocytes	25.5 nTPM
Brain	25.5 nTPM

B-cells	22.3 nTPM
Liver	38.9 nTPM
Breast	38.8 nTPM
Lymph node	33.3 nTPM
Stomach	25.9 nTPM
Bone marrow	22.1 nTPM
Adipose tissue	18.0 nTPM
Spleen	16.9 nTPM
PBMC	12.9 nTPM
Kidney	9.5 nTPM
Colon	6.4 nTPM

Dendritic cells	21.4 nTPM
Breast	32.1 nTPM
Adipose tissue	24.3 nTPM
PBMC	8.0 nTPM

Endothelial cells	20.7 nTPM
Esophagus	30.9 nTPM
Liver	28.4 nTPM
Endometrium	27.4 nTPM
Heart muscle	27.3 nTPM
Ovary	25.3 nTPM
Lung	24.9 nTPM
Skeletal muscle	22.0 nTPM
Breast	21.6 nTPM
Eye	19.4 nTPM
Skin	17.4 nTPM
Testis	13.9 nTPM
Prostate	13.7 nTPM
Placenta	9.7 nTPM
Pancreas	7.7 nTPM

Fibroblasts	20.0 nTPM
Esophagus	32.1 nTPM
Breast	29.1 nTPM
Adipose tissue	26.2 nTPM
Heart muscle	25.1 nTPM
Skeletal muscle	22.8 nTPM
Ovary	22.5 nTPM
Skin	18.1 nTPM
Placenta	14.8 nTPM
Prostate	13.9 nTPM
Stomach	10.4 nTPM
Lung	4.5 nTPM

Intestinal goblet cells	17.5 nTPM
Rectum	21.1 nTPM
Small intestine	16.4 nTPM
Colon	15.0 nTPM

Macrophages	25.0 nTPM
Breast	39.7 nTPM
Spleen	39.4 nTPM
Esophagus	36.2 nTPM
Endometrium	28.4 nTPM
Prostate	26.3 nTPM
Bone marrow	26.2 nTPM
Adipose tissue	26.0 nTPM
Skeletal muscle	25.2 nTPM
Ovary	24.0 nTPM
Stomach	23.5 nTPM
Pancreas	23.0 nTPM
Testis	19.7 nTPM
Lung	19.2 nTPM
Kidney	18.9 nTPM
PBMC	0.0 nTPM

Paneth cells	15.8 nTPM
Small intestine	18.8 nTPM
Rectum	15.5 nTPM
Colon	13.2 nTPM

Plasma cells	56.2 nTPM
Spleen	88.1 nTPM
Stomach	59.7 nTPM
Bone marrow	56.0 nTPM
Esophagus	55.5 nTPM
Adipose tissue	21.9 nTPM

Respiratory ciliated cells	11.4 nTPM
Bronchus	15.4 nTPM
Lung	7.3 nTPM

Smooth muscle cells	23.7 nTPM
Adipose tissue	36.7 nTPM
Heart muscle	34.7 nTPM
Endometrium	33.1 nTPM
Bronchus	29.3 nTPM
Breast	27.5 nTPM
Skeletal muscle	24.4 nTPM
Ovary	17.2 nTPM
Skin	17.1 nTPM
Esophagus	15.5 nTPM
Pancreas	14.0 nTPM
Prostate	11.6 nTPM

T-cells	21.7 nTPM
Breast	40.5 nTPM
Lymph node	32.8 nTPM
Adipose tissue	30.3 nTPM
Stomach	25.0 nTPM
Lung	24.3 nTPM
Endometrium	21.3 nTPM
Bone marrow	21.2 nTPM
Skeletal muscle	20.6 nTPM
Esophagus	19.7 nTPM
Prostate	19.0 nTPM
Skin	18.8 nTPM
Spleen	18.2 nTPM
Ovary	17.8 nTPM
Colon	16.1 nTPM
Liver	15.5 nTPM
PBMC	14.6 nTPM
Kidney	13.7 nTPM

Basal prostatic cells	8.6 nTPM
Prostate	8.6 nTPM

Basal respiratory cells	11.9 nTPM
Bronchus	11.9 nTPM

Basal squamous epithelial cells	10.8 nTPM
Esophagus	10.8 nTPM

Cholangiocytes	5.7 nTPM
Liver	5.7 nTPM

Undifferentiated cells	11.6 nTPM
Rectum	13.7 nTPM
Small intestine	13.0 nTPM
Colon	8.0 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